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The deepTools skill empowers Claude to assist bioinformaticians and researchers in processing Next-Generation Sequencing (NGS) data through expert guidance on command-line operations. It facilitates the conversion of BAM alignments to normalized bigWig tracks, the execution of rigorous quality control assessments like PCA and fingerprinting, and the generation of publication-quality visualizations including heatmaps and profile plots. By integrating domain-specific knowledge on effective genome sizes and normalization methods such as RPGC and RPKM, this skill ensures accurate, reproducible, and standardized analysis for ChIP-seq, RNA-seq, and ATAC-seq experiments.
