deeptools

SKILL.md

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.

For users new to deepTools, start with file validation and common workflows:

Before running any analysis, validate BAM, bigWig, and BED files using the validation script:

Boîte à outils d'analyse NGS. Conversion BAM en bigWig, QC (corrélation, PCA, empreintes digitales), cartes thermiques/profils (TSS, pics), pour la visualisation ChIP-seq, RNA-seq, ATAC-seq. Source : jackspace/claudeskillz.

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