add new beps

bids-standard · May 10, 2024 · 6203c26 · 6203c26
1 parent 602c94e
commit 6203c26
Showing 1 changed file with 117 additions and 81 deletions.
diff --git a/data/beps.yml b/data/beps.yml
@@ -4,15 +4,13 @@
 #   title:
 #   leads:
 #     - name:
-#   status:
+#   update:
 #   blocking:
 
 -   number: '004'
     title: Susceptibility Weighted Imaging (SWI)
     leads:
-    -   name: ' '
-    status:
-    -   Looking for a new leader.
+    update: Looking for a new leader.
     content:
     -   raw
     blocking: Looking for a new leader.
@@ -24,13 +22,20 @@
     title: Structural preprocessing derivatives
     leads:
     -   name: Viviana Siless
-    status:
-    -   Opened [pull request](https://github.com/bids-standard/bids-specification/pull/518).
-    -   Need to conform with final Common Derivatives and gather community feedback.
+    update: |
+        Opened [pull request](https://github.com/bids-standard/bids-specification/pull/518){:target:"_blank"}.
+
+        Features:
+        - surfaces,
+        - scalar maps on surfaces
+        - morphometrics.
+
+        Need to conform with final Common Derivatives and gather community feedback.
     content:
     -   derivative
-    blocking:
-    -   Blocked by BIDS-validator extending and PyBIDS implementation for common derivatives.
+    blocking: |
+        Blocked by BIDS-validator extending and PyBIDS implementation for common
+        derivatives
     google_doc_created: 2017-08
     pull_request_created: 2020-06
     pull_request_merged:
@@ -39,9 +44,12 @@
     title: Functional preprocessing derivatives
     leads:
     -   name: Chris Markiewicz
-    status:
-    -   Opened the [pull request](https://github.com/bids-standard/bids-specification/pull/519).
-    -   'Features: Derivative images (mean, ALFF, ReHo, etc.), Time series (confounds, decompositions, etc.)'
+    update: |
+        Opened the [pull request](https://github.com/bids-standard/bids-specification/pull/519){:target:"_blank"}.
+
+        Features:
+        - Derivative images (mean, ALFF, ReHo, etc.),
+        - Time series (confounds, decompositions, etc.)
     content:
     -   derivative
     blocking: Blocked by BIDS-validator extending and PyBIDS implementation
@@ -53,10 +61,11 @@
     title: Affine transformations and nonlinear field warps
     leads:
     -   name: Oscar Esteban
-    status:
-    -   Creating file format (X5) to store spatial transforms.
-    -   '[There is a software prototype - NiTransforms](https://osf.io/8aq7b/) demonstrates implementation of this BEP. '
-    -   NiTransforms has been tested and integrated to work within fMRIPrep
+    update: |
+        - Creating file format (X5) to store spatial transforms.
+
+        - [There is a software prototype - NiTransforms](https://osf.io/8aq7b/){:target:"_blank"} demonstrates implementation of this BEP.
+        NiTransforms has been tested and integrated to work within fMRIPrep
     content:
     -   derivative
     blocking: In progress.
@@ -69,11 +78,11 @@
     leads:
     -   name: Franco Pestilli
     -   name: Oscar Esteban
-    status:
-    -   Being discussed [here](https://github.com/bids-standard/bids-bep016).
-    -   Coordinating with BEP017.
-    -   Diffusion-weighted model description merged, but must comply to [this](https://github.com/bids-standard/bids-bep016/issues/7).
-    -   Upcoming integration across DWI, Tractography, Tractometry, and Connectivity (from fMRI and DWI)
+    update: |
+        - Being discussed [here](https://github.com/bids-standard/bids-bep016){:target:"_blank"}.
+        - Coordinating with BEP017.
+        - Diffusion-weighted model description merged, but must comply to [this](https://github.com/bids-standard/bids-bep016/issues/7){:target:"_blank"}.
+        - Upcoming integration across DWI, Tractography, Tractometry, and Connectivity (from fMRI and DWI)
     content:
     -   derivative
     blocking: None
@@ -85,10 +94,10 @@
     title: Generic BIDS connectivity data schema
     leads:
     -   name: Eugene Duff
-    status:
-    -   '[Current state](https://bids.neuroimaging.io/bep017).'
-    -   Intended as a meeting point for minimal harmonisation of connectivity-based formats across modalities.
-    -   Seeking use cases spanning modalities and input defining connectivity based formats
+    update: |
+        - [Current state](https://bids.neuroimaging.io/bep017){:target:"_blank}.
+        - Intended as a meeting point for minimal harmonisation of connectivity-based formats across modalities.
+        - Seeking use cases spanning modalities and input defining connectivity based formats
     content:
     -   derivative
     blocking: None
@@ -100,9 +109,9 @@
     title: Eye Tracking including Gaze Position and Pupil Size
     leads:
     -   name: Dejan Draschkow
-    status:
-    -   BEP close to PR submission, examples and validator under development.
-    -   Seeking additional BEP lead to help incorporate into standard contact [dejan](mailto:dejan.draschow@psy.ox.ac.uk) to get involved.
+    update: |
+        - BEP close to PR submission, examples and validator under development.
+        - Seeking additional BEP lead to help incorporate into standard contact [dejan](mailto:dejan.draschow@psy.ox.ac.uk) to get involved.
     content:
     -   raw
     blocking: None
@@ -120,9 +129,9 @@
     -   name: Guiomar Niso
     -   name: Robert Oostenveld
     -   name: Cyril Pernet
-    status:
-    -   Discussion [here](https://github.com/bids-standard/bep021) UCSD to include head models with BIDS EEG data.
-    -   Developments of BIDS M/EEG pipelines will trigger discussion on storing derived data.
+    update: |
+        - Discussion [here](https://github.com/bids-standard/bep021){:target:"_blank"} UCSD to include head models with BIDS EEG data.
+        - Developments of BIDS M/EEG pipelines will trigger discussion on storing derived data.
     content:
     -   derivative
     blocking: Mostly on hold.
@@ -136,9 +145,10 @@
     -   name: Mark Mikkelsen
     -   name: William Clarke
     -   name: Martin Wilson
-    status:
-    -   Group discussions [here](https://forum.mrshub.org/t/bids-for-spectroscopy/83) and [here](https://forum.mrshub.org/t/nifti-mrs-discussion-thread/443).
-    -   Developed NifTI standard for MRS data - presented abstract at ISMRM; manuscript in preparation.
+    update: |
+        - Group discussions [here](https://forum.mrshub.org/t/bids-for-spectroscopy/83){:target:"_blank"}
+        and [here](https://forum.mrshub.org/t/nifti-mrs-discussion-thread/443){:target:"_blank"}.
+        - Developed NifTI standard for MRS data - presented abstract at ISMRM; manuscript in preparation.
     content:
     -   raw
     blocking: None
@@ -152,10 +162,11 @@
     -   name: Martin Noergaard
     -   name: Graham Searle
     -   name: Melanie Ganz
-    status:
-    -   Work in progress following BEP009 incorporation into spec.
-    -   Coord. kickoff scheduled Sept. 2021 to capture various experimental designs and needs for preprocessing and pharmacokinetic modeling.
-    -   Focused on staying aligned with derivatives for MRI (structural, functional, ASL, diffusion)
+    update: |
+        - Work in progress following BEP009 incorporation into spec.
+        - Coord. kickoff scheduled Sept. 2021 to capture various experimental designs
+          and needs for preprocessing and pharmacokinetic modeling.
+        - Focused on staying aligned with derivatives for MRI (structural, functional, ASL, diffusion)
     content:
     -   derivative
     blocking: Progressing and soliciting input from senior PET experts.
@@ -167,8 +178,7 @@
     title: Computed Tomography scan (CT)
     leads:
     -   name: Hugo Boniface
-    status:
-    -   Lead seeking more contributors and experts.
+    update: Lead seeking more contributors and experts.
     content:
     -   raw
     blocking: None
@@ -180,8 +190,7 @@
     title: Microelectrode Recordings
     leads:
     -   name:
-    status:
-    -   BEP is open to new leadership, see also [BEP032 (animal electrophys)](https://bids.neuroimaging.io/bep032)
+    update: BEP is open to new leadership, see also [BEP032 (animal electrophys)](https://bids.neuroimaging.io/bep032){:target:"_blank"}
     content:
     -   raw
     blocking: Searching for a new leader.
@@ -194,13 +203,13 @@
     leads:
     -   name: Satra Ghosh
     -   name: Camille Maumet
-    status:
-    -   BEP aims to provide a description of data manipulation and transformations steps related to a BIDS data element via BIDS structured sidecar JSON-LD
-        files.
-    -   Can be used to describe provenance at different levels of granularity.
-    -   Discussions held in [this repository](https://github.com/bids-standard/BEP028_BIDSprov).
-    -   A set of [examples](https://github.com/bids-standard/BEP028_BIDSprov/tree/master/examples) and [user stories](https://github.com/bids-standard/BEP028_BIDSprov/issues/48)
-        are being refined.
+    update: |
+        - BEP aims to provide a description of data manipulation
+          and transformations steps related to a BIDS data element via BIDS structured sidecar JSON-LD files.
+        - Can be used to describe provenance at different levels of granularity.
+        - Discussions held in [this repository](https://github.com/bids-standard/BEP028_BIDSprov){:target:"_blank"}.
+        - A set of [examples](https://github.com/bids-standard/BEP028_BIDSprov/tree/master/examples){:target:"_blank"}
+        and [user stories](https://github.com/bids-standard/BEP028_BIDSprov/issues/48){:target:"_blank"} are being refined.
     content:
     -   metadata
     blocking: None
@@ -213,13 +222,16 @@
     leads:
     -   name: Sylvain Takerkart
     -   name: Julia Sprenger
-    status:
-    -   New BEP, collecting comments and community feedback which may be submitted [here](https://github.com/INCF/neuroscience-data-structure/issues),         directly
-        to [Sylvain](mailto:sylvain.takerkart@univ-amu.fr) &         [Julia](mailto:julia.sprenger@univ-amu.fr), or         [here](https://www.incf.org/sig/incf-working-group-standardized-data)
-        during the ~monthly meeting.
-    -   Example datasets [here](https://gin.g-node.org/NeuralEnsemble/BEP032-examples).
-    -   'Supporting early stage interaction with: [ProbeInterface & SpikeInterface](https://github.com/SpikeInterface),         [AnDO](https://github.com/INT-NIT/AnDO),         interoperability
-        with NWB and NIX data/metadata formats.'
+    update: |
+        - New BEP, collecting comments and community feedback which may be submitted
+        [here](https://github.com/INCF/neuroscience-data-structure/issues),
+        directly to [Sylvain](mailto:sylvain.takerkart@univ-amu.fr) &
+        [Julia](mailto:julia.sprenger@univ-amu.fr), or
+        [here](https://www.incf.org/sig/incf-working-group-standardized-data){:target:"_blank"} during the ~monthly meeting.
+        - Example datasets [here](https://gin.g-node.org/NeuralEnsemble/BEP032-examples){:target:"_blank"}.
+        - Supporting early stage interaction with: [ProbeInterface & SpikeInterface](https://github.com/SpikeInterface){:target:"_blank"},
+        [AnDO](https://github.com/INT-NIT/AnDO){:target:"_blank"},
+        interoperability with NWB and NIX data/metadata formats.
     content:
     -   raw
     blocking: None
@@ -233,11 +245,13 @@
     -   name: James Gholam
     -   name: Leandro Beltrachini
     -   name: Filip Szczepankiewicz
-    status:
-    -   'New BEP, seeking contributors and collecting community feedback relating to:         priority sequences to support, best supported binary structured
-        formats         (e.g. CBOR? HDF5? MsgPack?).'
-    -   Comments may be submitted directly on the document.
-    -   Generating example datasets [here](https://github.com/JAgho/MISP_plot/tree/main) and determining best practice w/ vendors to record data in-sequence
+    update: |
+        - New BEP, seeking contributors and collecting community feedback relating to:
+        priority sequences to support, best supported binary structured formats
+        (e.g. CBOR? HDF5? MsgPack?).
+        - Comments may be submitted directly on the document.
+        - Generating example datasets [here](https://github.com/JAgho/MISP_plot/tree/main){:target:"_blank"}
+        and determining best practice w/ vendors to record data in-sequence
     content:
     -   raw
     blocking: None
@@ -250,8 +264,9 @@
     leads:
     -   name: Michael Schirner
     -   name: Petra Ritter
-    status:
-    -   'BEP Computational Models: PR open for review and discussion [here](https://github.com/bids-standard/bids-specification/pull/850)'
+    update: |
+        BEP Computational Models: PR open for review and discussion
+        [here](https://github.com/bids-standard/bids-specification/pull/850)
     content:
     -   derivative
     -   metadata
@@ -266,9 +281,10 @@
     -   name: Giuseppe Gallitto
     -   name: Balint Kincses
     -   name: Tamas Spisak
-    status:
-    -   'BEP revised: now collecting further comments and community feedback.'
-    -   Collaborators with mega-analysis experience or with actual example use-cases (planned/ongoing/finished mega analyses) welcome!
+    update: |
+        - BEP revised: now collecting further comments and community feedback.
+        - Collaborators with mega-analysis experience or with actual example use-cases
+          (planned/ongoing/finished mega analyses) welcome!
     content:
     -   derivative
     blocking: None
@@ -281,11 +297,11 @@
     leads:
     -   name: '[Eric Earl](mailto:eric.earl@nih.gov)'
     -   name: '[Samuel Guay](mailto:samuel.guay@umontreal.ca)'
-    status:
-    -   BEP drafted.
-    -   Poster presentation at OHBM 2022.
-    -   Now collecting community comments and feedback.
-    -   All collaborators are welcome.
+    update: |
+        - BEP drafted.
+        - Poster presentation at OHBM 2022.
+        - Now collecting community comments and feedback.
+        - All collaborators are welcome.
     content:
     -   raw
     blocking: More reviews and discussions are necessary.
@@ -300,8 +316,7 @@
     -   name: '[Vittorio Iacovella](mailto:vittorio.iacovella@unitn.it)'
     -   name: '[Carlo Miniussi](mailto:carlo.miniussi@unitn.it)'
     -   name: '[Marta Bortoletto](mailto:marta.bortoletto@cognitiveneuroscience.it)'
-    status:
-    -   New BEP, collecting community comments and feedback. All collaborators are welcome.
+    update: New BEP, collecting community comments and feedback. All collaborators are welcome.
     content:
     -   raw
     blocking: None
@@ -316,8 +331,7 @@
     -   name: '[Peer Herholz](mailto:herholz.peer@gmail.com)'
     -   name: '[Eugene Duff](mailto:eugene.duff@paediatrics.ox.ac.uk)'
     -   name: '[Anthony Galassi](mailto:anthony.galassi@nih.gov)'
-    status:
-    -   New BEP, collecting community comments and feedback. All collaborators are welcome.
+    update: New BEP, collecting community comments and feedback. All collaborators are welcome.
     content:
     -   raw
     blocking: None
@@ -333,8 +347,7 @@
     -   name: '[Cyrus Eierud](mailto:ceierud@gsu.edu)'
     -   name: '[Franco Pestilli](mailto:pestilli@utexas.edu)'
     -   name: '[Peer Herholz](mailto:herholz.peer@gmail.com)'
-    status:
-    -   New BEP, collecting community comments and feedback. All collaborators are welcome.
+    update: New BEP, collecting community comments and feedback. All collaborators are welcome.
     content:
     -   raw
     blocking: None
@@ -348,8 +361,7 @@
     -   name: '[Jean-Charles Mariani](mailto:jean-charles.mariani@cri-paris.org)'
     -   name: '[Samuel Diebolt](mailto:samuel.diebolt@iconeus.com)'
     -   name: '[Thomas Deffieux](mailto:thomas.deffieux@inserm.fr)'
-    status:
-    -   New BEP, collecting community comments and feedback. All collaborators are welcome.
+    update: New BEP, collecting community comments and feedback. All collaborators are welcome.
     content:
     -   raw
     blocking: None
@@ -361,11 +373,35 @@
     title: Statistical Model Derivatives
     leads:
     -   name: '[Taylor Salo](mailto:salot@pennmedicine.upenn.edu)'
-    status:
-    -   New BEP, collecting community comments and feedback. All collaborators are welcome.
+    update: New BEP, collecting community comments and feedback. All collaborators are welcome.
     content:
     -   derivative
     blocking: None
     google_doc_created: 2022-08
     pull_request_created:
     pull_request_merged:
+
+-   number: '042'
+    title: Electromyography (EMG)
+    leads:
+    -   name: '[Seyed Yahya Shirazi](mailto:shirazi@ieee.org)'
+    update: New BEP, collecting community comments and feedback. All collaborators are welcome.
+    content:
+    -   raw
+    blocking: None
+    google_doc_created: 2023-01
+    pull_request_created:
+    pull_request_merged:
+
+-   number: '043'
+    title: BIDS Term Mapping
+    leads:
+    -   name: '[Chris Markiewicz](mailto:markiewicz@stanford.edu)'
+    -   name: '[Eric Earl](mailto:eric.earl@nih.gov)'
+    update: For being able to map non-BIDS data as BIDS-compatible. Now collecting community comments and feedback. All collaborators are welcome.
+    content:
+    -   metadata
+    blocking: None
+    google_doc_created: 2024-03
+    pull_request_created:
+    pull_request_merged: