fp-tools

Command-line ATAC-seq footprinting, motif analysis and HTML reports

Desktopfree

fp-tools is a command-line toolkit that turns ATAC-seq data into bias-corrected cut-site tracks, footprint scores, motif comparisons, aggregate plots and standalone HTML reports. It covers preprocessing, footprint calling, known and de novo motif analysis, differential comparisons between conditions, and pseudobulk workflows for single-cell ATAC fragments. It is for genomics researchers who want reproducible regulatory-genomics analyses, with an optional browser interface over the same commands.

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