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tasks
A collection of reusable WDL tasks. Category:OtherRNA-seq
A BioWDL pipeline for processing RNA-seq data, starting with FASTQ files to produce expression measures and VCFs. Category:Multi-Samplegermline-DNA
A BioWDL variantcalling pipeline for germline DNA data. Starting with FASTQ files to produce VCF files. Category:Multi-Samplewdl-aid
Automatic Input Documentation for WDL workflowswdl-packager
Package a WDL and its imports into a zip filestructural-variantcalling
A workflow for calling structural variants. Category:Single-Samplesomatic-variantcalling
A pipeline for somatic variantcalling. Category:Single-SampleWGSinCancerDiagnostics
ngs-performance-choices
Which tools to choose based on various performance metrics.mkbigfifo
A script to make FIFO files (pipes) with the maximum allowed buffer sizeprepull-singularity
A tool for pulling singularity images in HPC environments.pipeline-template
A pipeline template for modular pipelinesbiowdl-test-data
Reproducible and reusable test data for bioinformatics projects.gatk-variantcalling
A pipeline that calls variants on a group of BAM files. Category:Multi-Samplesingularity-permanent-cache
Creates a permanent cache for singularity images on disk.QC
A BioWDL workflow for gathering QC metrics on and prepocessing FASTQ files. Category:Single-Samplecollect-columns
scripts
Scripts for releasing, updating docs etc. in biowdl reposexpression-quantification
A BioWDL workflow for quantifying expression. Category:Multi-SampleTALON-WDL
WDL implementation of the TALON workflow. Category:Multi-Sample InDevelopmentuniparental-disomy
A simple pipeline to find uniparental-disomy based on GVCF data using UPDiocompare-gff
A pipeline to compare a General Feature Format file to other General Feature Format files.biotdg
Bioinformatics Test Data Generatorclinical-validation
Check if a VCF for a benchmark sample matches the given output.ansible-cromwell-database
Sets up a cromwell database server.bam-to-gvcf
A BioWDL workflow for generating gVCF files from BAM files.virus-assembly
A BioWDL pipeline for virus assembly.biowdl.github.io
The BioWDL organisation github.io site.sequence-classification
A workflow for processing metagenomics data sets using Centrifuge. Category:Single-SampleLove Open Source and this site? Check out how you can help us