Explore Workflows

https://github.com/pitagora-network/pitagora-cwl.git

Path: workflows/star-stringtie/paired_end/star-stringtie_wf_pe.cwl

Branch/Commit ID: master

https://github.com/golharam/cwl-graph-generate.git

Path: test/1st-workflow.cwl

Branch/Commit ID: master

https://github.com/ProteinsWebTeam/ebi-metagenomics-cwl.git

Path: tools/tRNA_selection.cwl

Branch/Commit ID: 1b0851e

Predict.py has been wrapped in cwl, getting the information from: https://github.com/hakyimlab/MetaXcan/wiki/Individual-level-PrediXcan:-introduction,-tutorials-and-manual Here is a snippet from: https://github.com/hakyimlab/MetaXcan/wiki/Individual-level-PrediXcan:-introduction,-tutorials-and-manual In the following, we focus on the individual-level implementation of PrediXcan. The method was originally implemented in this repository. PrediXcan consists of two steps: Predict gene expression (or whatever biology the models predict) in a cohort with available genotypes Run associations to a trait measured in the cohort The first step is implemented in Predict.py. The prediction models are trained and pre-compiled on specific data sets with their own human genome releases and variant definitions. We implemented a few rules to support variant matching from genotypes based on different variant definitions. In the following, mapping refers to the process of assigning a model variant to a genotype variant. Originally, PrediXcan was applied to genes so we say \"gene expression\" a lot as it was the mechanism we initially studied. But conceptually, everything said here applies to any intermediate/molecular mechanism such as splicing or brain morphology. Whenever we say \"gene\", it generally could mean a splicing intron event, etc.

https://github.com/cwl-apps/predixcan_tools.git

Path: predixcan/predixcan_unpack.cwl

Branch/Commit ID: main

https://doi.org/10.1007/s12275-011-1213-z

https://github.com/ProteinsWebTeam/ebi-metagenomics-cwl.git

Path: workflows/rna-selector.cwl

Branch/Commit ID: master

https://github.com/common-workflow-language/common-workflow-language.git

Path: v1.0/v1.0/count-lines17-wf.cwl

Branch/Commit ID: master

https://github.com/NCATS-Tangerine/ros.git

Path: ros/wf5/wf52.cwl

Branch/Commit ID: master

run 2-pass dedup: algo LocusCollector + algo Dedup sequentially in distributed mode

https://github.com/Sentieon/Sentieon-cwl.git

Path: stage/dedup-2-pass-distr.cwl

Branch/Commit ID: master

Annotate variants provided in a gziped VCF using SnpEff

https://github.com/andrewjesaitis/cwl-tutorial.git

Path: snpeff-workflow.cwl

Branch/Commit ID: master

https://github.com/fgomez02/analysis-workflows.git

Path: definitions/subworkflows/strelka_and_post_processing.cwl

Branch/Commit ID: No_filters_detect_variants