Bioinformatics workflows developed for and used on the St. Jude Cloud project.
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Updated
Feb 1, 2021 - WDL
Bioinformatics workflows developed for and used on the St. Jude Cloud project.
Workflow Description Language (WDL) test workflow. Write hardcoded messages to stdout. For testing Cloud WS APIs and the GA4GH Starter Kit.
Workflow Description Language (WDL) test workflow. Write custom messages as file outputs. For testing Cloud WS APIs and the GA4GH Starter Kit.
A demo repo to help folks run Star on RNA seq data and do DEseq2
RNA binding workflow geared towards broad discovery of binding sites
This is the repository for the WDL and JSON files accompanying the WDL 101 course.
WDL workflow language program, developed for singlecell rna sequencing data analysis, maintained by @OOAAHH(SunHao) .
Workflow to download paired fastqs from SRA and pass through STAR 2 pass
A repo containing workflows written in WDL to test using the Fred Hutch Cromwell configuration.
Strelka2 somatic variant calling workflow
A cloud-based pipeline to estimate telomere lengths from WGS data using Telseq
Focused on constructing a phylogenetic tree from Philippine strains of Candida albicans.
Variant Calling and Annotation using PacBio Hi-Fi Reads
Self-contained WDL workflow that converts a WGS FASTQ file into an unmapped CRAM file
A workflow for processing metagenomics data sets using Centrifuge. Category:Single-Sample
A collection of tasks wrapped in WDL
WDL pipelines for the Sentieon tools
Workflow for metagenome assembly
Broad fungal method repository
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