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  1. Community maintained workflows & tools (with examples)

    Common Workflow Language 97 55 Built by @portah @FarahZKhan @mr-c @skanwal @tetron
  2. Reproducible Analyses for Bioinformatics - Java

    Common Workflow Language 69 27 Built by @sivkovic @milos-ljubinkovic @markosbg @simonovic86 @AleksandarPetrovicSBG
  3. LaTeX cwl files for Sublime Text 2/3 with LaTeXing

    Common Workflow Language 33 12 Built by @hadisfr @csch0 @N4M3Z @warownia1 @tobiasdiez
  4. MGI's Analysis Workflows and Pipelines managed by the BGA group.

    Common Workflow Language 29 17 Built by @susannasiebert @tmooney @johnegarza @jasonwalker80 @apaul7
  5. Toolbox for OCR post-correction

    Common Workflow Language 26 6 Built by @jvdzwaan
  6. NCBI Prokaryotic Genome Annotation Pipeline

    Common Workflow Language 21 4 Built by @azat-badretdin @slottad @kiryutin @whlavina @DailyDreaming
  7. The MG-RAST pipeline

    Common Workflow Language 20 17 Built by @teharrison @jaredbischof @wilke @wgerlach @wtangiit
  8. Common Workflow Language tools and workflows by Pitagora-Network

    Common Workflow Language 16 3 Built by @inutano @yyabuki @tom-tan @mr-c
  9. Common Workflow Language 15 7 Built by @slottad @evolarjun @DCGenomics
  10. CWL tools and workflows for GGR

    Common Workflow Language 15 13 Built by @alexbarrera @dleehr @denis-yuen @gitter-badger
  11. Common Workflow Language 12 8 Built by @briandoconnor @pvanheus @zo0z @hocinebendou @yassineS
  12. Docker for 4DN Hi-C processing pipeline

    Common Workflow Language 12 5 Built by @SooLee @dhawalsjain @burakalver
  13. H3ABioNet 16S rDNA diverstity analysis package

    Common Workflow Language 12 7 Built by @grbot @mepstein-gh @ShakunBaichoo @mr-c @phelelani
  14. A community menagarie of automated variant validations using bcbio and the Common Workflow Language

    Common Workflow Language 10 7 Built by @chapmanb @garyluu @danbills @denis-yuen @FarahZKhan
  15. CWL implementation of CloudNeo: A cloud pipeline for identifying patient-specific tumor neoantigens

    Common Workflow Language 9 7 Built by @snamburi3 @PreetiBais2017
  16. Roslin is a portable and reproducible workflow infrastructure for Cancer Genomic Sequencing Analysis

    Common Workflow Language 9 6 Built by @hisplan @nikhil @ckandoth @allanbolipata @lordzappo
  17. This repository contains the CWL description of the EBI Metagenomics pipeline

    Common Workflow Language 9 6 Built by @mr-c @rdfinn @mscheremetjew
  18. Workflows written in common workflow language (CWL)

    Common Workflow Language 8 3 Built by @hacchy1983 @inutano @kozo2 @yk-tanigawa
  19. CWL for GDC DNASeq workflows

    Common Workflow Language 6 8 Built by @jeremiahsavage @portah @tetron @dmiller15 @lindenb
  20. Common Workflow Language 6 1 Built by @vardaofthevalier @smrgit @mdmiller53 @Gibbsdavidl @wlongabaugh
  21. This repository contains CWL descriptions of the various tools which will allow you to build workflows for the annotation of transcripts

    Common Workflow Language 5 3 Built by @mscheremetjew @hmenager
  22. Common Workflow Language 5 1 Built by @byee4 @alaindomissy
  23. Pipelines developed and used by 4DN-DCIC in Common Workflow Language

    Common Workflow Language 5 4 Built by @SooLee @dhawalsjain @burakalver
  24. Test workflows, run scripts and data for bcbio Common Workflow Language integration

    Common Workflow Language 5 8 Built by @chapmanb @FarahZKhan @geetduggal @brainstorm
  25. Tutorial for the Common Workflow Language using SnpEff

    Common Workflow Language 4 1 Built by @andrewjesaitis @dtenenba
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