skills/claude-scientific-skills
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Timothy Kassis
2025-10-21 12:50:07 -07:00
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scientific-packages/deeptools/SKILL.md
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@@ -7,7 +7,7 @@ description: "NGS analysis toolkit. BAM to bigWig conversion, QC (correlation, P
## Overview
deepTools is a comprehensive suite of Python command-line tools designed for processing and analyzing high-throughput sequencing data. This skill provides guidance for using deepTools to perform quality control, normalize data, compare samples, and generate publication-quality visualizations for ChIP-seq, RNA-seq, ATAC-seq, MNase-seq, and other NGS experiments.
deepTools is a comprehensive suite of Python command-line tools designed for processing and analyzing high-throughput sequencing data. Use deepTools to perform quality control, normalize data, compare samples, and generate publication-quality visualizations for ChIP-seq, RNA-seq, ATAC-seq, MNase-seq, and other NGS experiments.
**Core capabilities:**
- Convert BAM alignments to normalized coverage tracks (bigWig/bedGraph)
@@ -18,7 +18,7 @@ deepTools is a comprehensive suite of Python command-line tools designed for pro
## When to Use This Skill
This skill should be used when users request tasks involving:
This skill should be used when:
- **File conversion**: "Convert BAM to bigWig", "generate coverage tracks", "normalize ChIP-seq data"
- **Quality control**: "check ChIP quality", "compare replicates", "assess sequencing depth", "QC analysis"