All Published Workflows

4 workflows that have been reviewed and published

human_genomics_pipeline
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A Snakemake workflow to process single samples or cohorts of Illumina paired-end sequencing data (WGS or WES) using trim galore/bwa/GATK4/parabricks.
public

public

A Snakemake workflow to process single samples (unrelated individuals) or cohort samples (related individuals) of paired-end ...
FASTQ raw sequence reads Sequencing quality control Haplotype map gatk BWA FastQC MultiQC Snakemake Trim_Galore Genomics
Free
14
octo_snakemake
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workflow for hifiasm assembly stuff
public

public

workflow for hifiasm assembly stuff Hifiasm is used for assembling DNA sequences. It was originally developed for assembling ...
raw sequence reads Haplotype mapping Haplotype map assembly-stats Hifiasm Snakemake De Novo
Free
3
partial-ref-guided-workflow-gstacks-and-pops
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Partial Reference-Guided Workflow: Gstacks and Pops Analysis
public

public

workflow-partial-gstacks-populations These workflows are part of a set designed to work for RAD-seq data on the Galaxy platfo...
Map Sequence clustering Haplotype map Galaxy Stacks WorkflowHub Population genomics
Free
partial-de-novo-workflow-c-s-g-pops-only
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Partial de novo workflow: cstacks-sstacks-gstacks-pops only
public

public

workflow-partial-cstacks-sstacks-gstacks These workflows are part of a set designed to work for RAD-seq data on the Galaxy pl...
Map Sequence clustering phenotype report Haplotype map Galaxy Stacks WorkflowHub Population genomics
Free