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common-workflow-lab / wdl-cwl-translator

A translator from WDL to CWL v1.2
Apache License 2.0
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add comments about source and license for WDL tests #12

Open mr-c opened 3 years ago

mr-c commented 3 years ago

Here are some WDL examples that toil-wdl-runner uses: http://toil-datasets.s3.amazonaws.com/wdl_templates.zip

mr-c commented 3 years ago

also https://github.com/DataBiosphere/toil/tree/master/src/toil/test/wdl

swzCuroverse commented 3 years ago

I would suggest the GATK workflow --

List of different versions: https://gatk.broadinstitute.org/hc/en-us/articles/360035535932-Germline-short-variant-discovery-SNPs-Indels-

I would start either with the $5 version probably

$5 has moved to here: https://github.com/broadinstitute/warp/tree/develop/pipelines/broad/dna_seq/germline/single_sample/wgs

Also, other pipelines in WARP might be useful ---> https://github.com/broadinstitute/warp