diff --git a/data/datasets/examples b/data/datasets/examples index fc84fd0f..7c18d684 160000 --- a/data/datasets/examples +++ b/data/datasets/examples @@ -1 +1 @@ -Subproject commit fc84fd0f42560973b605ce812c7cf490800449e5 +Subproject commit 7c18d6840982518a0251cfeb59fe5c4610099ea1 diff --git a/docs/datasets/examples.md b/docs/datasets/examples.md new file mode 100644 index 00000000..351db1fc --- /dev/null +++ b/docs/datasets/examples.md @@ -0,0 +1,209 @@ +# BIDS examples with empty raw data files + + + + + + + +### ASL + + + +| name | description | datatypes | suffixes | link to full data | maintained by | +|:----------------------------------------------------------------------------|:----------------------------------------------------------------------------------------------|:-----------------|:------------------------------------------|:------------------------------|:-----------------------------------------| +| [asl001](https://github.com/bids-standard/bids-examples/tree/master/asl001) | T1w, asl (GE, PCASL, 3D_SPIRAL), m0scan within timeseries | anat, perf | T1w, asl, aslcontext, asllabeling | [link](https://osf.io/yru2q/) | [@patsycle](https://github.com/patsycle) | +| [asl002](https://github.com/bids-standard/bids-examples/tree/master/asl002) | T1w, asl (Philips, PCASL, 2D_EPI), m0scan as separate scan | anat, perf | T1w, asl, aslcontext, asllabeling, m0scan | [link](https://osf.io/yru2q/) | [@patsycle](https://github.com/patsycle) | +| [asl003](https://github.com/bids-standard/bids-examples/tree/master/asl003) | T1w, asl (Siemens, PASL, multiTI), M0scan as separate scan | anat, perf | T1w, asl, aslcontext, asllabeling, m0scan | [link](https://osf.io/yru2q/) | [@patsycle](https://github.com/patsycle) | +| [asl004](https://github.com/bids-standard/bids-examples/tree/master/asl004) | T1w, asl (Siemens, PCASL, multiPLD with pepolar), m0scan separate scans with pepolar approach | anat, fmap, perf | T1w, asl, aslcontext, asllabeling, m0scan | [link](https://osf.io/yru2q/) | [@patsycle](https://github.com/patsycle) | +| [asl005](https://github.com/bids-standard/bids-examples/tree/master/asl005) | T1w, asl (Siemens, PCASL, singleTI, 3D_GRASE), m0scan as separate scan | anat, perf | T1w, asl, aslcontext, asllabeling, m0scan | [link](https://osf.io/yru2q/) | [@patsycle](https://github.com/patsycle) | + +### EEG + + + +| name | description | datatypes | suffixes | link to full data | maintained by | +|:------------------------------------------------------------------------------------------------------------------|:-------------------------------------------------------------------------------------------------------------------|:------------|:-----------------------------------------------|:------------------------------------------------|:-----------------------------------------------| +| [eeg_cbm](https://github.com/bids-standard/bids-examples/tree/master/eeg_cbm) | Rest EEG. European Data Format (.edf) | eeg | channels, eeg, events, scans | n/a | [@cpernet](https://github.com/cpernet) | +| [eeg_ds003645s_hed_library](https://github.com/bids-standard/bids-examples/tree/master/eeg_ds003645s_hed_library) | HED annotation using HED library vocabularies (schema). | eeg | channels, eeg, events | [link](https://openneuro.org/datasets/ds003645) | [@VisLab](https://github.com/VisLab) | +| [eeg_face13](https://github.com/bids-standard/bids-examples/tree/master/eeg_face13) | Deconstructing the early visual electrocortical response to face and house stimuli. EDF format | eeg | channels, coordsystem, eeg, electrodes, events | n/a | [@andesha](https://github.com/andesha) | +| [eeg_matchingpennies](https://github.com/bids-standard/bids-examples/tree/master/eeg_matchingpennies) | Offline data of BCI experiment decoding left vs. right hand movement. BrainVision data format (.eeg, .vhdr, .vmrk) | eeg | channels, eeg, events | [link](https://doi.org/10.17605/OSF.IO/CJ2DR) | [@sappelhoff](https://github.com/sappelhoff) | +| [eeg_rishikesh](https://github.com/bids-standard/bids-examples/tree/master/eeg_rishikesh) | Mind wandering experiment. EEG data in Biosemi (.bdf) format | eeg | channels, eeg, events | [link](https://openneuro.org/datasets/ds001787) | [@arnodelorme](https://github.com/arnodelorme) | + +### iEEG + + + +| name | description | datatypes | suffixes | link to full data | maintained by | +|:------------------------------------------------------------------------------------------------------------|:---------------------------------------------------------------------------------------------------------------|:-----------------------|:-----------------------------------------------------------------------|:----------------------------------------------------------------------------|:---------------------------------------------| +| [ieeg_epilepsyNWB](https://github.com/bids-standard/bids-examples/tree/master/ieeg_epilepsyNWB) | multiple sessions, tutorial — derivative dataset of `ieeg_epilepsy` showcasing the NWB file format alternative | anat, ieeg | T1w, channels, coordsystem, electrodes, events, ieeg, scans | [link](https://neuroimage.usc.edu/bst/getupdate.php?s=tutorial_epimap_bids) | [@TheChymera](https://github.com/TheChymera) | +| [ieeg_epilepsy](https://github.com/bids-standard/bids-examples/tree/master/ieeg_epilepsy) | multiple sessions, tutorial | anat, ieeg | T1w, channels, coordsystem, electrodes, events, ieeg, scans | [link](https://neuroimage.usc.edu/bst/getupdate.php?s=tutorial_epimap_bids) | [@ftadel](https://github.com/ftadel) | +| [ieeg_epilepsy_ecog](https://github.com/bids-standard/bids-examples/tree/master/ieeg_epilepsy_ecog) | multiple sessions, tutorial | anat, ieeg | T1w, channels, coordsystem, electrodes, events, ieeg, photo, scans | [link](https://neuroimage.usc.edu/bst/getupdate.php?s=sample_ecog) | [@ftadel](https://github.com/ftadel) | +| [ieeg_filtered_speech](https://github.com/bids-standard/bids-examples/tree/master/ieeg_filtered_speech) | recordings of three seizures | ieeg | channels, coordsystem, electrodes, events, ieeg, photo | n/a | [@choldgraf](https://github.com/choldgraf) | +| [ieeg_motorMiller2007](https://github.com/bids-standard/bids-examples/tree/master/ieeg_motorMiller2007) | Cue-based hand & tongue movement data | ieeg | channels, coordsystem, electrodes, events, ieeg | n/a | [@dorahermes](https://github.com/dorahermes) | +| [ieeg_visual](https://github.com/bids-standard/bids-examples/tree/master/ieeg_visual) | Stimulus dependence of gamma oscillations in human visual cortex | anat, ieeg | T1w, channels, coordsystem, electrodes, events, ieeg | n/a | [@dorahermes](https://github.com/dorahermes) | +| [ieeg_visual_multimodal](https://github.com/bids-standard/bids-examples/tree/master/ieeg_visual_multimodal) | n/a | anat, fmap, func, ieeg | T1w, bold, channels, coordsystem, electrodes, epi, events, ieeg, sbref | n/a | [@irisgroen](https://github.com/irisgroen) | + +### MEG + + + +| name | description | datatypes | suffixes | link to full data | maintained by | +|:--------------------------------------------------------------------------------|:---------------------------------------------------------------------------------------------------------------------|:--------------------------------|:------------------------------------------------------------------------------------------------------------------------------|:---------------------------------------------------------------|:-------------------------------------------| +| [ds000117](https://github.com/bids-standard/bids-examples/tree/master/ds000117) | A multi-subject, multi-modal human neuroimaging dataset of 19 subjects on a MEG visual task | anat, beh, dwi, fmap, func, meg | FLASH, T1w, bold, channels, coordsystem, dwi, events, headshape, magnitude1, magnitude2, meg, phasediff, scans | [link](https://openneuro.org/datasets/ds000117/) | [@RikHenson](https://github.com/RikHenson) | +| [ds000246](https://github.com/bids-standard/bids-examples/tree/master/ds000246) | Auditory dataset used for Brainstorm’s general online tutorial | anat, meg | ChannelGroupSet, ClassFile, MarkerFile, T1w, channels, coordsystem, default, headshape, meg, params, photo, processing, scans | [link](https://openneuro.org/datasets/ds000246/versions/00001) | [@guiomar](https://github.com/guiomar) | +| [ds000247](https://github.com/bids-standard/bids-examples/tree/master/ds000247) | Five minutes, eyes-open, resting-state MEG data from 5 subjects. This is a sample from The Open MEG Archive (OMEGA). | anat, meg | ClassFile, T1w, bad, channels, coordsystem, default, headshape, meg, params, processing, scans | [link](https://openneuro.org/datasets/ds000247/versions/00001) | [@guiomar](https://github.com/guiomar) | +| [ds000248](https://github.com/bids-standard/bids-examples/tree/master/ds000248) | MNE sample data: Data with visual and auditory stimuli | anat, meg | FLASH, T1w, channels, coordsystem, events, meg, scans | [link](https://openneuro.org/datasets/ds000248/versions/00001) | [@agramfort](https://github.com/agramfort) | + +### Microscopy + + + +| name | description | datatypes | suffixes | link to full data | maintained by | +|:------------------------------------------------------------------------------------------------------------|:------------------------------------------------------------------------------------------------|:-----------------------------|:--------------------------------------------------------------------------------------------------------------------------|:-------------------------------------------------------------|:---------------------------------------------| +| [eeg_ds003645s_hed_demo](https://github.com/bids-standard/bids-examples/tree/master/eeg_ds003645s_hed_demo) | Shows usage of Hierarchical Event Descriptor (HED) in .tsv files | anat, beh, eeg, micr, motion | KSSSleep, SPIM, beh, channels, coordsystem, defacemask, eeg, electrodes, events, headshape, motion, photo, samples, scans | [link](https://openneuro.org/datasets/ds003645) | [@VisLab](https://github.com/VisLab) | +| [micr_SEM](https://github.com/bids-standard/bids-examples/tree/master/micr_SEM) | Example SEM dataset in PNG format with 1 sample imaged over 2 sessions | micr | SEM, photo, samples, sessions | [link](https://doi.org/10.5281/zenodo.5498378) | [@jcohenadad](https://github.com/jcohenadad) | +| [micr_SEMzarr](https://github.com/bids-standard/bids-examples/tree/master/micr_SEMzarr) | Example SEM dataset in PNG and OME-ZARR format with 1 sample imaged over 2 sessions | micr | SEM, SPIM, samples, sessions | n/a | [@TheChymera](https://github.com/TheChymera) | +| [micr_SPIM](https://github.com/bids-standard/bids-examples/tree/master/micr_SPIM) | Example SPIM dataset in OME-TIFF format with 2 samples from the same subject with 4 chunks each | micr | SPIM, photo, samples | [link](https://doi.org/10.5281/zenodo.5517223) | [@jcohenadad](https://github.com/jcohenadad) | +| [micr_XPCTzarr](https://github.com/bids-standard/bids-examples/tree/master/micr_XPCTzarr) | Example XPCT dataset in OME-ZARR format with 1 sample imaged | micr | photo, samples, sessions | [link](https://human-organ-atlas.esrf.eu/datasets/572252538) | [@chourroutm](https://github.com/chourroutm) | + +### Motion + + + +| name | description | datatypes | suffixes | link to full data | maintained by | +|:--------------------------------------------------------------------------------------------------------------|:----------------------------------------------------------------------------------------------------------|:-----------------------------|:--------------------------------------------------------------------------------------------------------------------------|:--------------------------------------------------------|:-------------------------------------------------| +| [eeg_ds003645s_hed_demo](https://github.com/bids-standard/bids-examples/tree/master/eeg_ds003645s_hed_demo) | Shows usage of Hierarchical Event Descriptor (HED) in .tsv files | anat, beh, eeg, micr, motion | KSSSleep, SPIM, beh, channels, coordsystem, defacemask, eeg, electrodes, events, headshape, motion, photo, samples, scans | [link](https://openneuro.org/datasets/ds003645) | [@VisLab](https://github.com/VisLab) | +| [motion_dualtask](https://github.com/bids-standard/bids-examples/tree/master/motion_dualtask) | older and younger participants walking while performing discrimination task | eeg, motion | channels, eeg, events, motion, scans | n/a | [@sjeung](https://github.com/sjeung) | +| [motion_spotrotation](https://github.com/bids-standard/bids-examples/tree/master/motion_spotrotation) | participants rotated heading using full-body motion or joystick | eeg, motion | channels, coordsystem, eeg, electrodes, events, motion, scans | [link](https://openneuro.org/datasets/ds004460) | [@sjeung](https://github.com/sjeung) | +| [motion_systemvalidation](https://github.com/bids-standard/bids-examples/tree/master/motion_systemvalidation) | Example dataset of two different motion captured system recorded almost simultaneously, but no brain data | motion | channels, motion, scans | [link](https://doi.org/10.6084/m9.figshare.20238006.v2) | [@JuliusWelzel](https://github.com/JuliusWelzel) | + +### MRI + + + +| name | description | datatypes | suffixes | link to full data | maintained by | +|:------------------------------------------------------------------------------------------------------------|:--------------------------------------------------------------------------------------------|:--------------------------------|:---------------------------------------------------------------------------------------------------------------|:---------------------------------------------------------------|:-------------------------------------------| +| [7t_trt](https://github.com/bids-standard/bids-examples/tree/master/7t_trt) | n/a | anat, fmap, func | T1map, T1w, bold, magnitude1, magnitude2, phasediff, physio, scans, sessions | [link](https://bit.ly/2H0Z6Qt) | n/a | +| [ds000117](https://github.com/bids-standard/bids-examples/tree/master/ds000117) | A multi-subject, multi-modal human neuroimaging dataset of 19 subjects on a MEG visual task | anat, beh, dwi, fmap, func, meg | FLASH, T1w, bold, channels, coordsystem, dwi, events, headshape, magnitude1, magnitude2, meg, phasediff, scans | [link](https://openneuro.org/datasets/ds000117/) | [@RikHenson](https://github.com/RikHenson) | +| [ds001](https://github.com/bids-standard/bids-examples/tree/master/ds001) | single task, multiple runs | anat, func | CITATION, T1w, bold, events, inplaneT2 | [link](https://openneuro.org/datasets/ds000001/versions/00006) | n/a | +| [ds002](https://github.com/bids-standard/bids-examples/tree/master/ds002) | multiple tasks, multiple runs | anat, func | T1w, bold, events, inplaneT2 | [link](https://openneuro.org/datasets/ds000002/versions/00002) | n/a | +| [ds003](https://github.com/bids-standard/bids-examples/tree/master/ds003) | single task, single run | anat, func | T1w, bold, events, inplaneT2 | [link](https://openneuro.org/datasets/ds000003/versions/00001) | n/a | +| [ds005](https://github.com/bids-standard/bids-examples/tree/master/ds005) | single task, multiple runs | anat, func | T1w, bold, events, inplaneT2 | [link](https://openneuro.org/datasets/ds000005/versions/00001) | n/a | +| [ds006](https://github.com/bids-standard/bids-examples/tree/master/ds006) | single task, multiple sessions, multiple runs | anat, func | T1w, bold, events, inplaneT2 | [link](https://openneuro.org/datasets/ds000006/versions/00001) | n/a | +| [ds007](https://github.com/bids-standard/bids-examples/tree/master/ds007) | single task, multiple runs | anat, func | T1w, bold, events, inplaneT2 | [link](https://openneuro.org/datasets/ds000007/versions/00001) | n/a | +| [ds008](https://github.com/bids-standard/bids-examples/tree/master/ds008) | multiple tasks, multiple runs | anat, func | T1w, bold, events, inplaneT2 | [link](https://openneuro.org/datasets/ds000008/versions/00001) | n/a | +| [ds009](https://github.com/bids-standard/bids-examples/tree/master/ds009) | multiple tasks, multiple runs | anat, func | T1w, bold, events, inplaneT2, scans | [link](https://openneuro.org/datasets/ds000009/versions/00002) | n/a | +| [ds011](https://github.com/bids-standard/bids-examples/tree/master/ds011) | multiple tasks, multiple runs | anat, func | T1w, bold, events, inplaneT2 | [link](https://openneuro.org/datasets/ds000011/versions/00001) | n/a | +| [ds051](https://github.com/bids-standard/bids-examples/tree/master/ds051) | multiple tasks, multiple runs | anat, func | T1w, bold, events, inplaneT2 | [link](https://openneuro.org/datasets/ds000051/versions/00001) | n/a | +| [ds052](https://github.com/bids-standard/bids-examples/tree/master/ds052) | multiple tasks, multiple runs | anat, func | T1w, bold, events, inplaneT2 | [link](https://openneuro.org/datasets/ds000052/versions/00001) | n/a | +| [ds101](https://github.com/bids-standard/bids-examples/tree/master/ds101) | single task, multiple runs | anat, func | T1w, bold, events | [link](https://openneuro.org/datasets/ds000101/versions/00004) | n/a | +| [ds102](https://github.com/bids-standard/bids-examples/tree/master/ds102) | single task, multiple runs | anat, func | T1w, bold, events | [link](https://openneuro.org/datasets/ds000102/versions/00001) | n/a | +| [ds105](https://github.com/bids-standard/bids-examples/tree/master/ds105) | single task, multiple runs | anat, func | T1w, bold, events | [link](https://openneuro.org/datasets/ds000105/versions/00001) | n/a | +| [ds107](https://github.com/bids-standard/bids-examples/tree/master/ds107) | single task, multiple runs | anat, func | T1w, bold, events | [link](https://openneuro.org/datasets/ds000107/versions/00001) | n/a | +| [ds108](https://github.com/bids-standard/bids-examples/tree/master/ds108) | single task, multiple runs | anat, func | T1w, bold, events | [link](https://openneuro.org/datasets/ds000108/versions/00002) | n/a | +| [ds109](https://github.com/bids-standard/bids-examples/tree/master/ds109) | multiple tasks, multiple runs | anat, func | T1w, bold, events | [link](https://openneuro.org/datasets/ds000109/versions/00001) | n/a | +| [ds110](https://github.com/bids-standard/bids-examples/tree/master/ds110) | single task, multiple runs | anat, func | T1w, bold, events, inplaneT2 | [link](https://openneuro.org/datasets/ds000110/versions/00001) | n/a | +| [ds113b](https://github.com/bids-standard/bids-examples/tree/master/ds113b) | forrest gump watching, multiple sessions, multiple runs | func | bold, events | [link](https://openneuro.org/datasets/ds000113/versions/1.3.0) | n/a | +| [ds114](https://github.com/bids-standard/bids-examples/tree/master/ds114) | multiple tasks, multiple runs | anat, dwi, func | T1w, bold, dwi, events | [link](https://openneuro.org/datasets/ds000114/versions/1.0.1) | n/a | +| [ds116](https://github.com/bids-standard/bids-examples/tree/master/ds116) | multiple tasks, multiple runs | anat, func | T1w, bold, events, inplaneT2 | [link](https://openneuro.org/datasets/ds000116/versions/00003) | n/a | +| [ds210](https://github.com/bids-standard/bids-examples/tree/master/ds210) | multiple tasks, multiple runs | func | bold, physio | [link](https://openneuro.org/datasets/ds000210/versions/00002) | n/a | +| [eeg_rest_fmri](https://github.com/bids-standard/bids-examples/tree/master/eeg_rest_fmri) | Resting state with simultaneous fMRI. BrainVision data format (.eeg, .vhdr, .vmrk) | anat, dwi, eeg, func | T1w, bold, dwi, eeg | n/a | [@cpernet](https://github.com/cpernet) | +| [genetics_ukbb](https://github.com/bids-standard/bids-examples/tree/master/genetics_ukbb) | multiple tasks, T1w, DTI, BOLD, genetic info | anat, dwi, func | FLAIR, T1w, bold, dwi, events, info | n/a | [@cpernet](https://github.com/cpernet) | +| [ieeg_visual_multimodal](https://github.com/bids-standard/bids-examples/tree/master/ieeg_visual_multimodal) | n/a | anat, fmap, func, ieeg | T1w, bold, channels, coordsystem, electrodes, epi, events, ieeg, sbref | n/a | [@irisgroen](https://github.com/irisgroen) | +| [synthetic](https://github.com/bids-standard/bids-examples/tree/master/synthetic) | A synthetic dataset | anat, beh, func | T1w, beh, bold, events, physio, scans, sessions, stim | n/a | [@effigies](https://github.com/effigies) | + +### MRS + + + +| name | description | datatypes | suffixes | link to full data | maintained by | +|--------|---------------|-------------|------------|---------------------|-----------------| + +### NIRS + + + +| name | description | datatypes | suffixes | link to full data | maintained by | +|:----------------------------------------------------------------------------------------------------|:------------------------------------------------------------------------|:------------|:---------------------------------------------------------------------|:-----------------------------------------------|:---------------------------------------------------------| +| [fnirs_automaticity](https://github.com/bids-standard/bids-examples/tree/master/fnirs_automaticity) | 24 subjects performing (non-)automatic finger tapping and foot stepping | nirs | channels, coordsystem, events, nirs, optodes, practicelogbook, scans | [link](https://doi.org/10.34973/vesb-mh30) | [@robertoostenveld](https://github.com/robertoostenveld) | +| [fnirs_tapping](https://github.com/bids-standard/bids-examples/tree/master/fnirs_tapping) | Example fNIRS measurement with three conditions from five subjects | nirs | channels, coordsystem, events, nirs, optodes, scans | [link](https://doi.org/10.5281/zenodo.5529797) | [@rob-luke](https://github.com/rob-luke) | + +### PET + + + +| name | description | datatypes | suffixes | link to full data | maintained by | +|:----------------------------------------------------------------------------|:----------------|:------------|:-----------------|:-------------------------------------------------|:---------------------------------------------| +| [pet001](https://github.com/bids-standard/bids-examples/tree/master/pet001) | T1w, PET, blood | anat, pet | T1w, blood, pet | n/a | [@mnoergaard](https://github.com/mnoergaard) | +| [pet002](https://github.com/bids-standard/bids-examples/tree/master/pet002) | T1w, PET | anat, pet | T1w, pet | [link](https://openneuro.org/datasets/ds001420/) | [@mnoergaard](https://github.com/mnoergaard) | +| [pet003](https://github.com/bids-standard/bids-examples/tree/master/pet003) | T1w, PET, blood | anat, pet | T1w, blood, pet | n/a | [@mnoergaard](https://github.com/mnoergaard) | +| [pet004](https://github.com/bids-standard/bids-examples/tree/master/pet004) | PET, blood | pet | blood, pet | n/a | [@mnoergaard](https://github.com/mnoergaard) | +| [pet005](https://github.com/bids-standard/bids-examples/tree/master/pet005) | T1w, PET | anat, pet | T1w, events, pet | n/a | [@mnoergaard](https://github.com/mnoergaard) | + +### qMRI + + + +| name | description | datatypes | suffixes | link to full data | maintained by | +|:--------------------------------------------------------------------------------------------|:-----------------------------------------------------------------------------------------|:------------|:-------------------------------------------------------|:------------------------------|:-------------------------------------------------------------| +| [qmri_irt1](https://github.com/bids-standard/bids-examples/tree/master/qmri_irt1) | Inversion Recovery T1 mapping | anat | IRT1 | `not publicly available` | [@agahkarakuzu](https://github.com/agahkarakuzu) | +| [qmri_megre](https://github.com/bids-standard/bids-examples/tree/master/qmri_megre) | Multi-Echo Gradient-Echo for T2star mapping. | anat | MEGRE | `not publicly available` | [@agahkarakuzu](https://github.com/agahkarakuzu) | +| [qmri_mese](https://github.com/bids-standard/bids-examples/tree/master/qmri_mese) | Multi-Echo Spin-Echo for T2 or Myelin Water Fraction (MWF) mapping. | anat | MESE | `not publicly available` | [@agahkarakuzu](https://github.com/agahkarakuzu) | +| [qmri_mp2rage](https://github.com/bids-standard/bids-examples/tree/master/qmri_mp2rage) | MP2RAGE for T1 mapping | anat | MP2RAGE, T1map, UNIT1, defacemask | [link](https://osf.io/k4bs5/) | [@Gilles86](https://github.com/Gilles86) | +| [qmri_mp2rageme](https://github.com/bids-standard/bids-examples/tree/master/qmri_mp2rageme) | Multi-echo MP2RAGE | anat, fmap | MP2RAGE, TB1map | [link](https://osf.io/k4bs5/) | [@Gilles86](https://github.com/Gilles86) | +| [qmri_mpm](https://github.com/bids-standard/bids-examples/tree/master/qmri_mpm) | Multi-parametric mapping for R1, R2star, MTsat and PD mapping | anat, fmap | MPM, RB1COR, TB1EPI, magnitude1, magnitude2, phasediff | [link](https://osf.io/k4bs5/) | [@ChristophePhillips](https://github.com/ChristophePhillips) | +| [qmri_mtsat](https://github.com/bids-standard/bids-examples/tree/master/qmri_mtsat) | Example dataset for T1 and MTsat mapping. Includes a double-angle B1+ mapping example. | anat, fmap | MTS, TB1DAM | [link](https://osf.io/k4bs5/) | [@agahkarakuzu](https://github.com/agahkarakuzu) | +| [qmri_qsm](https://github.com/bids-standard/bids-examples/tree/master/qmri_qsm) | Chimap using fast QSM | anat | T1w | `not publicly available` | [@agahkarakuzu](https://github.com/agahkarakuzu) | +| [qmri_sa2rage](https://github.com/bids-standard/bids-examples/tree/master/qmri_sa2rage) | Fast B1+ mapping using SA2RAGE | fmap | TB1SRGE | `not publicly available` | [@agahkarakuzu](https://github.com/agahkarakuzu) | +| [qmri_tb1tfl](https://github.com/bids-standard/bids-examples/tree/master/qmri_tb1tfl) | B1+ mapping with TurboFLASH readout. | fmap | TB1TFL | `not publicly available` | [@agahkarakuzu](https://github.com/agahkarakuzu) | +| [qmri_vfa](https://github.com/bids-standard/bids-examples/tree/master/qmri_vfa) | Variable Flip Angle T1 mapping. Includes an Actual Flip Angle (AFI) B1+ mapping example. | anat, fmap | TB1AFI, VFA | [link](https://osf.io/k4bs5/) | [@agahkarakuzu](https://github.com/agahkarakuzu) | + +### Behavioral + + + +| name | description | datatypes | suffixes | link to full data | maintained by | +|:------------------------------------------------------------------------------------------------------------|:--------------------------------------------------------------------------------------------|:--------------------------------|:--------------------------------------------------------------------------------------------------------------------------|:-------------------------------------------------|:-------------------------------------------| +| [ds000117](https://github.com/bids-standard/bids-examples/tree/master/ds000117) | A multi-subject, multi-modal human neuroimaging dataset of 19 subjects on a MEG visual task | anat, beh, dwi, fmap, func, meg | FLASH, T1w, bold, channels, coordsystem, dwi, events, headshape, magnitude1, magnitude2, meg, phasediff, scans | [link](https://openneuro.org/datasets/ds000117/) | [@RikHenson](https://github.com/RikHenson) | +| [eeg_ds003645s_hed_demo](https://github.com/bids-standard/bids-examples/tree/master/eeg_ds003645s_hed_demo) | Shows usage of Hierarchical Event Descriptor (HED) in .tsv files | anat, beh, eeg, micr, motion | KSSSleep, SPIM, beh, channels, coordsystem, defacemask, eeg, electrodes, events, headshape, motion, photo, samples, scans | [link](https://openneuro.org/datasets/ds003645) | [@VisLab](https://github.com/VisLab) | +| [synthetic](https://github.com/bids-standard/bids-examples/tree/master/synthetic) | A synthetic dataset | anat, beh, func | T1w, beh, bold, events, physio, scans, sessions, stim | n/a | [@effigies](https://github.com/effigies) | diff --git a/docs/datasets/index.md b/docs/datasets/index.md index 6a3b38df..96e63c94 100644 --- a/docs/datasets/index.md +++ b/docs/datasets/index.md @@ -18,202 +18,3 @@ Datasets here are (by and large) publicly available and conform to BIDS. ## Mother of unification studies A 204-subject multimodal (MEG, MRI, fMRI) [dataset](http://data.donders.ru.nl/collections/di/dccn/DSC_3011020.09_236?0) to study language processing. - -## BIDS examples with empty raw data files - - - - - - - -### ASL - - - -| name | description | datatypes | suffixes | link to full data | maintained by | -|:----------------------------------------------------------------------------|:----------------------------------------------------------------------------------------------|:-----------------|:------------------------------------------|:------------------------------|:-----------------------------------------| -| [asl001](https://github.com/bids-standard/bids-examples/tree/master/asl001) | T1w, asl (GE, PCASL, 3D_SPIRAL), m0scan within timeseries | anat, perf | T1w, asl, aslcontext, asllabeling | [link](https://osf.io/yru2q/) | [@patsycle](https://github.com/patsycle) | -| [asl002](https://github.com/bids-standard/bids-examples/tree/master/asl002) | T1w, asl (Philips, PCASL, 2D_EPI), m0scan as separate scan | anat, perf | T1w, asl, aslcontext, asllabeling, m0scan | [link](https://osf.io/yru2q/) | [@patsycle](https://github.com/patsycle) | -| [asl003](https://github.com/bids-standard/bids-examples/tree/master/asl003) | T1w, asl (Siemens, PASL, multiTI), M0scan as separate scan | anat, perf | T1w, asl, aslcontext, asllabeling, m0scan | [link](https://osf.io/yru2q/) | [@patsycle](https://github.com/patsycle) | -| [asl004](https://github.com/bids-standard/bids-examples/tree/master/asl004) | T1w, asl (Siemens, PCASL, multiPLD with pepolar), m0scan separate scans with pepolar approach | anat, fmap, perf | T1w, asl, aslcontext, asllabeling, m0scan | [link](https://osf.io/yru2q/) | [@patsycle](https://github.com/patsycle) | -| [asl005](https://github.com/bids-standard/bids-examples/tree/master/asl005) | T1w, asl (Siemens, PCASL, singleTI, 3D_GRASE), m0scan as separate scan | anat, perf | T1w, asl, aslcontext, asllabeling, m0scan | [link](https://osf.io/yru2q/) | [@patsycle](https://github.com/patsycle) | - -### EEG - - - -| name | description | datatypes | suffixes | link to full data | maintained by | -|:------------------------------------------------------------------------------------------------------------------|:-------------------------------------------------------------------------------------------------------------------|:------------|:-----------------------------------------------|:------------------------------------------------|:-----------------------------------------------| -| [eeg_cbm](https://github.com/bids-standard/bids-examples/tree/master/eeg_cbm) | Rest EEG. European Data Format (.edf) | eeg | channels, eeg, events, scans | n/a | [@cpernet](https://github.com/cpernet) | -| [eeg_ds003645s_hed_library](https://github.com/bids-standard/bids-examples/tree/master/eeg_ds003645s_hed_library) | HED annotation using HED library vocabularies (schema). | eeg | channels, eeg, events | [link](https://openneuro.org/datasets/ds003645) | [@VisLab](https://github.com/VisLab) | -| [eeg_face13](https://github.com/bids-standard/bids-examples/tree/master/eeg_face13) | Deconstructing the early visual electrocortical response to face and house stimuli. EDF format | eeg | channels, coordsystem, eeg, electrodes, events | n/a | [@andesha](https://github.com/andesha) | -| [eeg_matchingpennies](https://github.com/bids-standard/bids-examples/tree/master/eeg_matchingpennies) | Offline data of BCI experiment decoding left vs. right hand movement. BrainVision data format (.eeg, .vhdr, .vmrk) | eeg | channels, eeg, events | [link](https://doi.org/10.17605/OSF.IO/CJ2DR) | [@sappelhoff](https://github.com/sappelhoff) | -| [eeg_rishikesh](https://github.com/bids-standard/bids-examples/tree/master/eeg_rishikesh) | Mind wandering experiment. EEG data in Biosemi (.bdf) format | eeg | channels, eeg, events | [link](https://openneuro.org/datasets/ds001787) | [@arnodelorme](https://github.com/arnodelorme) | - -### iEEG - - - -| name | description | datatypes | suffixes | link to full data | maintained by | -|:------------------------------------------------------------------------------------------------------------|:---------------------------------------------------------------------------------------------------------------|:-----------------------|:-----------------------------------------------------------------------|:----------------------------------------------------------------------------|:---------------------------------------------| -| [ieeg_epilepsyNWB](https://github.com/bids-standard/bids-examples/tree/master/ieeg_epilepsyNWB) | multiple sessions, tutorial — derivative dataset of `ieeg_epilepsy` showcasing the NWB file format alternative | anat, ieeg | T1w, channels, coordsystem, electrodes, events, ieeg, scans | [link](https://neuroimage.usc.edu/bst/getupdate.php?s=tutorial_epimap_bids) | [@TheChymera](https://github.com/TheChymera) | -| [ieeg_epilepsy](https://github.com/bids-standard/bids-examples/tree/master/ieeg_epilepsy) | multiple sessions, tutorial | anat, ieeg | T1w, channels, coordsystem, electrodes, events, ieeg, scans | [link](https://neuroimage.usc.edu/bst/getupdate.php?s=tutorial_epimap_bids) | [@ftadel](https://github.com/ftadel) | -| [ieeg_epilepsy_ecog](https://github.com/bids-standard/bids-examples/tree/master/ieeg_epilepsy_ecog) | multiple sessions, tutorial | anat, ieeg | T1w, channels, coordsystem, electrodes, events, ieeg, photo, scans | [link](https://neuroimage.usc.edu/bst/getupdate.php?s=sample_ecog) | [@ftadel](https://github.com/ftadel) | -| [ieeg_filtered_speech](https://github.com/bids-standard/bids-examples/tree/master/ieeg_filtered_speech) | recordings of three seizures | ieeg | channels, coordsystem, electrodes, events, ieeg, photo | n/a | [@choldgraf](https://github.com/choldgraf) | -| [ieeg_motorMiller2007](https://github.com/bids-standard/bids-examples/tree/master/ieeg_motorMiller2007) | Cue-based hand & tongue movement data | ieeg | channels, coordsystem, electrodes, events, ieeg | n/a | [@dorahermes](https://github.com/dorahermes) | -| [ieeg_visual](https://github.com/bids-standard/bids-examples/tree/master/ieeg_visual) | Stimulus dependence of gamma oscillations in human visual cortex | anat, ieeg | T1w, channels, coordsystem, electrodes, events, ieeg | n/a | [@dorahermes](https://github.com/dorahermes) | -| [ieeg_visual_multimodal](https://github.com/bids-standard/bids-examples/tree/master/ieeg_visual_multimodal) | n/a | anat, fmap, func, ieeg | T1w, bold, channels, coordsystem, electrodes, epi, events, ieeg, sbref | n/a | [@irisgroen](https://github.com/irisgroen) | - -### MEG - - - -| name | description | datatypes | suffixes | link to full data | maintained by | -|:--------------------------------------------------------------------------------|:---------------------------------------------------------------------------------------------------------------------|:--------------------------------|:------------------------------------------------------------------------------------------------------------------------------|:---------------------------------------------------------------|:-------------------------------------------| -| [ds000117](https://github.com/bids-standard/bids-examples/tree/master/ds000117) | A multi-subject, multi-modal human neuroimaging dataset of 19 subjects on a MEG visual task | anat, beh, dwi, fmap, func, meg | FLASH, T1w, beh, bold, channels, coordsystem, dwi, events, headshape, magnitude1, magnitude2, meg, phasediff, scans | [link](https://openneuro.org/datasets/ds000117/) | [@RikHenson](https://github.com/RikHenson) | -| [ds000246](https://github.com/bids-standard/bids-examples/tree/master/ds000246) | Auditory dataset used for Brainstorm’s general online tutorial | anat, meg | ChannelGroupSet, ClassFile, MarkerFile, T1w, channels, coordsystem, default, headshape, meg, params, photo, processing, scans | [link](https://openneuro.org/datasets/ds000246/versions/00001) | [@guiomar](https://github.com/guiomar) | -| [ds000247](https://github.com/bids-standard/bids-examples/tree/master/ds000247) | Five minutes, eyes-open, resting-state MEG data from 5 subjects. This is a sample from The Open MEG Archive (OMEGA). | anat, meg | ClassFile, T1w, bad, channels, coordsystem, default, headshape, meg, params, processing, scans | [link](https://openneuro.org/datasets/ds000247/versions/00001) | [@guiomar](https://github.com/guiomar) | -| [ds000248](https://github.com/bids-standard/bids-examples/tree/master/ds000248) | MNE sample data: Data with visual and auditory stimuli | anat, meg | FLASH, T1w, channels, coordsystem, events, meg, scans | [link](https://openneuro.org/datasets/ds000248/versions/00001) | [@agramfort](https://github.com/agramfort) | - -### Microscopy - - - -| name | description | datatypes | suffixes | link to full data | maintained by | -|:------------------------------------------------------------------------------------------------------------|:------------------------------------------------------------------------------------------------|:-----------------------------|:--------------------------------------------------------------------------------------------------------------------------|:------------------------------------------------|:---------------------------------------------| -| [eeg_ds003645s_hed_demo](https://github.com/bids-standard/bids-examples/tree/master/eeg_ds003645s_hed_demo) | Shows usage of Hierarchical Event Descriptor (HED) in .tsv files | anat, beh, eeg, micr, motion | KSSSleep, SPIM, beh, channels, coordsystem, defacemask, eeg, electrodes, events, headshape, motion, photo, samples, scans | [link](https://openneuro.org/datasets/ds003645) | [@VisLab](https://github.com/VisLab) | -| [micr_SEM](https://github.com/bids-standard/bids-examples/tree/master/micr_SEM) | Example SEM dataset in PNG format with 1 sample imaged over 2 sessions | micr | SEM, photo, samples, sessions | [link](https://doi.org/10.5281/zenodo.5498378) | [@jcohenadad](https://github.com/jcohenadad) | -| [micr_SEMzarr](https://github.com/bids-standard/bids-examples/tree/master/micr_SEMzarr) | Example SEM dataset in PNG and OME-ZARR format with 1 sample imaged over 2 sessions | micr | SEM, SPIM, samples, sessions | n/a | [@TheChymera](https://github.com/TheChymera) | -| [micr_SPIM](https://github.com/bids-standard/bids-examples/tree/master/micr_SPIM) | Example SPIM dataset in OME-TIFF format with 2 samples from the same subject with 4 chunks each | micr | SPIM, photo, samples | [link](https://doi.org/10.5281/zenodo.5517223) | [@jcohenadad](https://github.com/jcohenadad) | - -### Motion - - - -| name | description | datatypes | suffixes | link to full data | maintained by | -|:--------------------------------------------------------------------------------------------------------------|:----------------------------------------------------------------------------------------------------------|:-----------------------------|:--------------------------------------------------------------------------------------------------------------------------|:--------------------------------------------------------|:-------------------------------------------------| -| [eeg_ds003645s_hed_demo](https://github.com/bids-standard/bids-examples/tree/master/eeg_ds003645s_hed_demo) | Shows usage of Hierarchical Event Descriptor (HED) in .tsv files | anat, beh, eeg, micr, motion | KSSSleep, SPIM, beh, channels, coordsystem, defacemask, eeg, electrodes, events, headshape, motion, photo, samples, scans | [link](https://openneuro.org/datasets/ds003645) | [@VisLab](https://github.com/VisLab) | -| [motion_dualtask](https://github.com/bids-standard/bids-examples/tree/master/motion_dualtask) | older and younger participants walking while performing discrimination task | eeg, motion | channels, eeg, events, motion, scans | n/a | [@sjeung](https://github.com/sjeung) | -| [motion_spotrotation](https://github.com/bids-standard/bids-examples/tree/master/motion_spotrotation) | participants rotated heading using full-body motion or joystick | eeg, motion | channels, coordsystem, eeg, electrodes, events, motion, scans | [link](https://openneuro.org/datasets/ds004460) | [@sjeung](https://github.com/sjeung) | -| [motion_systemvalidation](https://github.com/bids-standard/bids-examples/tree/master/motion_systemvalidation) | Example dataset of two different motion captured system recorded almost simultaneously, but no brain data | motion | channels, motion, scans | [link](https://doi.org/10.6084/m9.figshare.20238006.v2) | [@JuliusWelzel](https://github.com/JuliusWelzel) | - -### MRI - - - -| name | description | datatypes | suffixes | link to full data | maintained by | -|:------------------------------------------------------------------------------------------------------------|:--------------------------------------------------------------------------------------------|:--------------------------------|:--------------------------------------------------------------------------------------------------------------------|:---------------------------------------------------------------|:-------------------------------------------| -| [7t_trt](https://github.com/bids-standard/bids-examples/tree/master/7t_trt) | n/a | anat, fmap, func | T1map, T1w, bold, magnitude1, magnitude2, phasediff, physio, scans, sessions | [link](https://bit.ly/2H0Z6Qt) | n/a | -| [ds000117](https://github.com/bids-standard/bids-examples/tree/master/ds000117) | A multi-subject, multi-modal human neuroimaging dataset of 19 subjects on a MEG visual task | anat, beh, dwi, fmap, func, meg | FLASH, T1w, beh, bold, channels, coordsystem, dwi, events, headshape, magnitude1, magnitude2, meg, phasediff, scans | [link](https://openneuro.org/datasets/ds000117/) | [@RikHenson](https://github.com/RikHenson) | -| [ds001](https://github.com/bids-standard/bids-examples/tree/master/ds001) | single task, multiple runs | anat, func | T1w, bold, events, inplaneT2 | [link](https://openneuro.org/datasets/ds000001/versions/00006) | n/a | -| [ds002](https://github.com/bids-standard/bids-examples/tree/master/ds002) | multiple tasks, multiple runs | anat, func | T1w, bold, events, inplaneT2 | [link](https://openneuro.org/datasets/ds000002/versions/00002) | n/a | -| [ds003](https://github.com/bids-standard/bids-examples/tree/master/ds003) | single task, single run | anat, func | T1w, bold, events, inplaneT2 | [link](https://openneuro.org/datasets/ds000003/versions/00001) | n/a | -| [ds005](https://github.com/bids-standard/bids-examples/tree/master/ds005) | single task, multiple runs | anat, func | T1w, bold, events, inplaneT2 | [link](https://openneuro.org/datasets/ds000005/versions/00001) | n/a | -| [ds006](https://github.com/bids-standard/bids-examples/tree/master/ds006) | single task, multiple sessions, multiple runs | anat, func | T1w, bold, events, inplaneT2 | [link](https://openneuro.org/datasets/ds000006/versions/00001) | n/a | -| [ds007](https://github.com/bids-standard/bids-examples/tree/master/ds007) | single task, multiple runs | anat, func | T1w, bold, events, inplaneT2 | [link](https://openneuro.org/datasets/ds000007/versions/00001) | n/a | -| [ds008](https://github.com/bids-standard/bids-examples/tree/master/ds008) | multiple tasks, multiple runs | anat, func | T1w, bold, events, inplaneT2 | [link](https://openneuro.org/datasets/ds000008/versions/00001) | n/a | -| [ds009](https://github.com/bids-standard/bids-examples/tree/master/ds009) | multiple tasks, multiple runs | anat, func | T1w, bold, events, inplaneT2, scans | [link](https://openneuro.org/datasets/ds000009/versions/00002) | n/a | -| [ds011](https://github.com/bids-standard/bids-examples/tree/master/ds011) | multiple tasks, multiple runs | anat, func | T1w, bold, events, inplaneT2 | [link](https://openneuro.org/datasets/ds000011/versions/00001) | n/a | -| [ds051](https://github.com/bids-standard/bids-examples/tree/master/ds051) | multiple tasks, multiple runs | anat, func | T1w, bold, events, inplaneT2 | [link](https://openneuro.org/datasets/ds000051/versions/00001) | n/a | -| [ds052](https://github.com/bids-standard/bids-examples/tree/master/ds052) | multiple tasks, multiple runs | anat, func | T1w, bold, events, inplaneT2 | [link](https://openneuro.org/datasets/ds000052/versions/00001) | n/a | -| [ds101](https://github.com/bids-standard/bids-examples/tree/master/ds101) | single task, multiple runs | anat, func | T1w, bold, events | [link](https://openneuro.org/datasets/ds000101/versions/00004) | n/a | -| [ds102](https://github.com/bids-standard/bids-examples/tree/master/ds102) | single task, multiple runs | anat, func | T1w, bold, events | [link](https://openneuro.org/datasets/ds000102/versions/00001) | n/a | -| [ds105](https://github.com/bids-standard/bids-examples/tree/master/ds105) | single task, multiple runs | anat, func | T1w, bold, events | [link](https://openneuro.org/datasets/ds000105/versions/00001) | n/a | -| [ds107](https://github.com/bids-standard/bids-examples/tree/master/ds107) | single task, multiple runs | anat, func | T1w, bold, events | [link](https://openneuro.org/datasets/ds000107/versions/00001) | n/a | -| [ds108](https://github.com/bids-standard/bids-examples/tree/master/ds108) | single task, multiple runs | anat, func | T1w, bold, events | [link](https://openneuro.org/datasets/ds000108/versions/00002) | n/a | -| [ds109](https://github.com/bids-standard/bids-examples/tree/master/ds109) | multiple tasks, multiple runs | anat, func | T1w, bold, events | [link](https://openneuro.org/datasets/ds000109/versions/00001) | n/a | -| [ds110](https://github.com/bids-standard/bids-examples/tree/master/ds110) | single task, multiple runs | anat, func | T1w, bold, events, inplaneT2 | [link](https://openneuro.org/datasets/ds000110/versions/00001) | n/a | -| [ds113b](https://github.com/bids-standard/bids-examples/tree/master/ds113b) | forrest gump watching, multiple sessions, multiple runs | func | bold, events | [link](https://openneuro.org/datasets/ds000113/versions/1.3.0) | n/a | -| [ds114](https://github.com/bids-standard/bids-examples/tree/master/ds114) | multiple tasks, multiple runs | anat, dwi, func | T1w, bold, dwi, events | [link](https://openneuro.org/datasets/ds000114/versions/1.0.1) | n/a | -| [ds116](https://github.com/bids-standard/bids-examples/tree/master/ds116) | multiple tasks, multiple runs | anat, func | T1w, bold, events, inplaneT2 | [link](https://openneuro.org/datasets/ds000116/versions/00003) | n/a | -| [ds210](https://github.com/bids-standard/bids-examples/tree/master/ds210) | multiple tasks, multiple runs | func | bold, physio | [link](https://openneuro.org/datasets/ds000210/versions/00002) | n/a | -| [eeg_rest_fmri](https://github.com/bids-standard/bids-examples/tree/master/eeg_rest_fmri) | Resting state with simultaneous fMRI. BrainVision data format (.eeg, .vhdr, .vmrk) | anat, dwi, eeg, func | T1w, bold, dwi, eeg | n/a | [@cpernet](https://github.com/cpernet) | -| [genetics_ukbb](https://github.com/bids-standard/bids-examples/tree/master/genetics_ukbb) | multiple tasks, T1w, DTI, BOLD, genetic info | anat, dwi, func | FLAIR, T1w, bold, dwi, events, info | n/a | [@cpernet](https://github.com/cpernet) | -| [ieeg_visual_multimodal](https://github.com/bids-standard/bids-examples/tree/master/ieeg_visual_multimodal) | n/a | anat, fmap, func, ieeg | T1w, bold, channels, coordsystem, electrodes, epi, events, ieeg, sbref | n/a | [@irisgroen](https://github.com/irisgroen) | -| [synthetic](https://github.com/bids-standard/bids-examples/tree/master/synthetic) | A synthetic dataset | anat, beh, func | T1w, beh, bold, events, physio, scans, sessions, stim | n/a | [@effigies](https://github.com/effigies) | - -### NIRS - - - -| name | description | datatypes | suffixes | link to full data | maintained by | -|:----------------------------------------------------------------------------------------------------|:------------------------------------------------------------------------|:------------|:---------------------------------------------------------------------|:-----------------------------------------------|:---------------------------------------------------------| -| [fnirs_automaticity](https://github.com/bids-standard/bids-examples/tree/master/fnirs_automaticity) | 24 subjects performing (non-)automatic finger tapping and foot stepping | nirs | channels, coordsystem, events, nirs, optodes, practicelogbook, scans | [link](https://doi.org/10.34973/vesb-mh30) | [@robertoostenveld](https://github.com/robertoostenveld) | -| [fnirs_tapping](https://github.com/bids-standard/bids-examples/tree/master/fnirs_tapping) | Example fNIRS measurement with three conditions from five subjects | nirs | channels, coordsystem, events, nirs, optodes, scans | [link](https://doi.org/10.5281/zenodo.5529797) | [@rob-luke](https://github.com/rob-luke) | - -### PET - - - -| name | description | datatypes | suffixes | link to full data | maintained by | -|:----------------------------------------------------------------------------|:----------------|:------------|:-----------------|:-------------------------------------------------|:---------------------------------------------| -| [pet001](https://github.com/bids-standard/bids-examples/tree/master/pet001) | T1w, PET, blood | anat, pet | T1w, blood, pet | n/a | [@mnoergaard](https://github.com/mnoergaard) | -| [pet002](https://github.com/bids-standard/bids-examples/tree/master/pet002) | T1w, PET | anat, pet | T1w, pet | [link](https://openneuro.org/datasets/ds001420/) | [@mnoergaard](https://github.com/mnoergaard) | -| [pet003](https://github.com/bids-standard/bids-examples/tree/master/pet003) | T1w, PET, blood | anat, pet | T1w, blood, pet | n/a | [@mnoergaard](https://github.com/mnoergaard) | -| [pet004](https://github.com/bids-standard/bids-examples/tree/master/pet004) | PET, blood | pet | blood, pet | n/a | [@mnoergaard](https://github.com/mnoergaard) | -| [pet005](https://github.com/bids-standard/bids-examples/tree/master/pet005) | T1w, PET | anat, pet | T1w, events, pet | n/a | [@mnoergaard](https://github.com/mnoergaard) | - -### qMRI - - - -| name | description | datatypes | suffixes | link to full data | maintained by | -|:--------------------------------------------------------------------------------------------|:-----------------------------------------------------------------------------------------|:------------|:-------------------------------------------------------|:------------------------------|:-------------------------------------------------------------| -| [qmri_irt1](https://github.com/bids-standard/bids-examples/tree/master/qmri_irt1) | Inversion Recovery T1 mapping | anat | IRT1 | `not publicly available` | [@agahkarakuzu](https://github.com/agahkarakuzu) | -| [qmri_megre](https://github.com/bids-standard/bids-examples/tree/master/qmri_megre) | Multi-Echo Gradient-Echo for T2star mapping. | anat | MEGRE | `not publicly available` | [@agahkarakuzu](https://github.com/agahkarakuzu) | -| [qmri_mese](https://github.com/bids-standard/bids-examples/tree/master/qmri_mese) | Multi-Echo Spin-Echo for T2 or Myelin Water Fraction (MWF) mapping. | anat | MESE | `not publicly available` | [@agahkarakuzu](https://github.com/agahkarakuzu) | -| [qmri_mp2rage](https://github.com/bids-standard/bids-examples/tree/master/qmri_mp2rage) | MP2RAGE for T1 mapping | anat | MP2RAGE, T1map, UNIT1, defacemask | [link](https://osf.io/k4bs5/) | [@Gilles86](https://github.com/Gilles86) | -| [qmri_mp2rageme](https://github.com/bids-standard/bids-examples/tree/master/qmri_mp2rageme) | Multi-echo MP2RAGE | anat, fmap | MP2RAGE, TB1map | [link](https://osf.io/k4bs5/) | [@Gilles86](https://github.com/Gilles86) | -| [qmri_mpm](https://github.com/bids-standard/bids-examples/tree/master/qmri_mpm) | Multi-parametric mapping for R1, R2star, MTsat and PD mapping | anat, fmap | MPM, RB1COR, TB1EPI, magnitude1, magnitude2, phasediff | [link](https://osf.io/k4bs5/) | [@ChristophePhillips](https://github.com/ChristophePhillips) | -| [qmri_mtsat](https://github.com/bids-standard/bids-examples/tree/master/qmri_mtsat) | Example dataset for T1 and MTsat mapping. Includes a double-angle B1+ mapping example. | anat, fmap | MTS, TB1DAM | [link](https://osf.io/k4bs5/) | [@agahkarakuzu](https://github.com/agahkarakuzu) | -| [qmri_qsm](https://github.com/bids-standard/bids-examples/tree/master/qmri_qsm) | Chimap using fast QSM | anat | T1w | `not publicly available` | [@agahkarakuzu](https://github.com/agahkarakuzu) | -| [qmri_sa2rage](https://github.com/bids-standard/bids-examples/tree/master/qmri_sa2rage) | Fast B1+ mapping using SA2RAGE | fmap | TB1SRGE | `not publicly available` | [@agahkarakuzu](https://github.com/agahkarakuzu) | -| [qmri_tb1tfl](https://github.com/bids-standard/bids-examples/tree/master/qmri_tb1tfl) | B1+ mapping with TurboFLASH readout. | fmap | TB1TFL | `not publicly available` | [@agahkarakuzu](https://github.com/agahkarakuzu) | -| [qmri_vfa](https://github.com/bids-standard/bids-examples/tree/master/qmri_vfa) | Variable Flip Angle T1 mapping. Includes an Actual Flip Angle (AFI) B1+ mapping example. | anat, fmap | TB1AFI, VFA | [link](https://osf.io/k4bs5/) | [@agahkarakuzu](https://github.com/agahkarakuzu) | - -### Behavioral - - - -| name | description | datatypes | suffixes | link to full data | maintained by | -|:------------------------------------------------------------------------------------------------------------|:--------------------------------------------------------------------------------------------|:--------------------------------|:--------------------------------------------------------------------------------------------------------------------------|:-------------------------------------------------|:-------------------------------------------| -| [ds000117](https://github.com/bids-standard/bids-examples/tree/master/ds000117) | A multi-subject, multi-modal human neuroimaging dataset of 19 subjects on a MEG visual task | anat, beh, dwi, fmap, func, meg | FLASH, T1w, beh, bold, channels, coordsystem, dwi, events, headshape, magnitude1, magnitude2, meg, phasediff, scans | [link](https://openneuro.org/datasets/ds000117/) | [@RikHenson](https://github.com/RikHenson) | -| [eeg_ds003645s_hed_demo](https://github.com/bids-standard/bids-examples/tree/master/eeg_ds003645s_hed_demo) | Shows usage of Hierarchical Event Descriptor (HED) in .tsv files | anat, beh, eeg, micr, motion | KSSSleep, SPIM, beh, channels, coordsystem, defacemask, eeg, electrodes, events, headshape, motion, photo, samples, scans | [link](https://openneuro.org/datasets/ds003645) | [@VisLab](https://github.com/VisLab) | -| [synthetic](https://github.com/bids-standard/bids-examples/tree/master/synthetic) | A synthetic dataset | anat, beh, func | T1w, beh, bold, events, physio, scans, sessions, stim | n/a | [@effigies](https://github.com/effigies) | diff --git a/makefile b/makefile index 480b03c4..e371b9e0 100644 --- a/makefile +++ b/makefile @@ -26,7 +26,7 @@ update_contributors: package.json update_datasets_examples: @echo " ---------------------------------- " - python data/datasets/examples/tools/print_dataset_listing.py docs/datasets/index.md + python data/datasets/examples/tools/print_dataset_listing.py docs/datasets/examples.md # Figures