Genome Sequence Informatics

All

228 repositories

dimsum
Public
QC Tracking dashboard
infrastructure
Java
•
GNU General Public License v3.0
•0•1•0•1•Updated Oct 31, 2024Oct 31, 2024
djerba
Public
Create cancer bioinformatics reports from metadata and workflow output
infrastructure interpretation
Python
•
GNU General Public License v3.0
•4•9•4•6•Updated Oct 31, 2024Oct 31, 2024
smmipQC
Public
Set up manual smMip QC analyses
workflow
Python
•0•0•0•0•Updated Oct 30, 2024Oct 30, 2024
bamToFastq
Public
Generate R1 and R2
workflow
WDL
•0•0•0•0•Updated Oct 30, 2024Oct 30, 2024
nabu
Public
QC tracking for files via a web service
infrastructure
JavaScript
•
MIT License
•0•0•2•5•Updated Oct 30, 2024Oct 30, 2024
vidarr
Public
Analysis provenance tracking server
infrastructure
Java
•
MIT License
•1•1•0•0•Updated Oct 30, 2024Oct 30, 2024
callability
Public
workflow
WDL
•1•0•1•3•Updated Oct 29, 2024Oct 29, 2024
smmipQCReport
Public
Scripts to generate a summary table with QC metrics for each smMIP libraries
tools analysis
Python
•0•0•0•0•Updated Oct 29, 2024Oct 29, 2024
shesmu
Public
Decision-driven action launching system
infrastructure bioinformatics bioinformatics-pipeline workflow-management workflow-launching
Java
•
MIT License
•4•8•0•2•Updated Oct 29, 2024Oct 29, 2024
cerberus
Public
File provenance library
infrastructure
Java
•
MIT License
•0•0•0•2•Updated Oct 29, 2024Oct 29, 2024
pinery
Public
A LIMS abstraction layer to provide generalized LIMS access via a web service.
infrastructure
Java
•
GNU General Public License v3.0
•0•1•0•0•Updated Oct 24, 2024Oct 24, 2024
cardea
Public
Case data API
infrastructure
Java
•
Apache License 2.0
•0•0•0•0•Updated Oct 24, 2024Oct 24, 2024
sampuru
Public
Answers the question: "where's my sample?"
infrastructure
Java
•0•0•0•8•Updated Oct 19, 2024Oct 19, 2024
data_release
Public
Scripts for releasing data generated at OICR to stakeholders
infrastructure analysis
Python
•
MIT License
•0•0•0•0•Updated Oct 18, 2024Oct 18, 2024
dashi
Public
Python Dash visualization of OICR QC data
infrastructure qc
Python
•
MIT License
•2•4•0•1•Updated Oct 18, 2024Oct 18, 2024
bclconvert
Public
Workflow to process a run directory through Dragen bclconvert
workflow
WDL
•0•0•0•0•Updated Oct 17, 2024Oct 17, 2024
biomodalQC
Public
QC workflow for biomodal pipeline
WDL
•0•0•0•0•Updated Oct 11, 2024Oct 11, 2024
flask_ui
Public
projectconfig UI
tools pipeline
Python
•
MIT License
•0•0•0•0•Updated Oct 7, 2024Oct 7, 2024
Nextflow_WG_pipeline
Public
workflow
Nextflow
•0•0•0•0•Updated Oct 3, 2024Oct 3, 2024
mrdetect
Public
workflow to detect Minimal Residual disease with MRDetect
workflow
WDL
•0•0•1•0•Updated Sep 30, 2024Sep 30, 2024
provenanceReporter
Public
infrastructure analysis
Python
•0•0•0•0•Updated Sep 27, 2024Sep 27, 2024
pinery-reports
Public
Reports based on data from Pinery
infrastructure qc
Java
•
GNU Lesser General Public License v3.0
•1•0•0•1•Updated Sep 25, 2024Sep 25, 2024
illumina-run-dirs
Public
tools data-management
Perl
•
MIT License
•0•0•1•1•Updated Sep 24, 2024Sep 24, 2024
purple
Public
workflow
WDL
•0•1•0•0•Updated Sep 12, 2024Sep 12, 2024
wgsPipeline
Public archive
workflow
0•0•0•0•Updated Aug 28, 2024Aug 28, 2024
delly
Public
Delly workflow produces a set of vcf files with different types of structural variant calls
workflow variant-calling structural-variation
WDL
•2•1•0•0•Updated Aug 27, 2024Aug 27, 2024
variantEffectPredictor
Public
Variant Effect Predictor Workflow
workflow
WDL
•1•3•1•1•Updated Aug 20, 2024Aug 20, 2024
cBioPortal_Importer
Public
Scripts to facilitate loading data into cBioPortal
tools release
Python
•0•0•0•1•Updated Aug 7, 2024Aug 7, 2024
bcl2fastq
Public
Workflow for Illumina's bcl2fastq
workflow illumina bcl2fastq base-calling
C++
•1•0•0•1•Updated Jul 15, 2024Jul 15, 2024
ichorCNA
Public
workflow for estimating the fraction of tumour in cell-free DNA from sWGS
workflow
WDL
•1•0•0•1•Updated Jul 12, 2024Jul 12, 2024