fastsig
Fast publication-quality signal heatmaps and boxplots, with a Rust-accelerated implementation of the most commonly used signal-processing primitives.
pip install fastsig
fastsig --help
fastsig pipeline --help # end-to-end BAM/bigWig → heatmap+boxplot
fastsig function --help # gene-set heatmap from GMT
fastsig gene --help # gene-body heatmap from GTF
fastsig gtf-to-bed --help # extract genes/transcripts from GTF.gz
Subcommands
pipeline End-to-end BAM/bigWig → matrix → heatmap + boxplot driver
function Gene-set heatmap + boxplot from one or more GMT/text files
gene Gene-body heatmap + boxplot from a GTF or gene BED
plot-heatmap-box Compute a signal matrix then render heatmap + boxplot
bam-coverage Convert BAM to normalized bigWig/bedGraph coverage
bigwig-compare Combine two bigWigs (log2/ratio/subtract/add/mean) into one
compute-matrix Build per-region signal matrices from bigWigs (.mat.gz)
gtf-to-bed Extract genes or transcripts from GTF(.gz) to BED6
Documentation
Full user guide (Chinese) — installation, every subcommand's parameter table, end-to-end recipes, input format reference, FAQ, and how to build from source:
📖 https://github.com/typekey/deeptools_rust/blob/main/docs/fastsig_usage.md
See the project README for benchmarks, architecture notes, and demo figures.
License
MIT
1 maintainer
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