Workflows
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Workflow type
Snakemake1
Submitter
Stevie Pederson1
Space
Independent Teams1
Creator
Stevie Pederson1
Topic annotations
Transcription factor binding site prediction1
Operation annotations
Transcription factor binding site prediction1
Maturity
Work-in-progress1
1
Workflow matching the given criteria:
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Space:
Independent Teams1
Operation annotations:
Transcription factor binding site prediction1
Work-in-progress
prepareChIPs
This is a simple snakemake workflow template for preparing single-end ChIP-Seq data.
The steps implemented are:
- Download raw fastq files from SRA
- Trim and Filter raw fastq files using
AdapterRemoval - Align to the supplied genome using
bowtie2 - Deduplicate Alignments using
Picard MarkDuplicates - Call Macs2 Peaks using
macs2
A pdf of the rulegraph is available here
Full details for each step are given below. Any additional ...
