WiggleTools

bigWigMerge merges multiple bigWig signal tracks into a single bedGraph output by summing (or optionally taking the maximum of) per-base signal values. Essential for combining ChIP-seq, ATAC-seq, RNA-

3 shared topics • 1 shared operation

Use when working with Gviz, the Bioconductor R package for plotting genomic coordinates, annotations, signal tracks, read alignments, and sequence context in genome-browser-style figures. Covers core

3 shared topics • 1 shared operation

pygenometracks -- Python program and library for plotting publication-quality genome browser tracks. Generates highly customizable visualizations of bigwig, BED, GTF, bedgraph, Hi-C matrices, links/ar

3 shared topics • 1 shared operation

deepTools — suite of Python tools for efficient analysis and visualization of high-throughput sequencing data including ChIP-seq, ATAC-seq, MNase-seq, and RNA-seq. BAM-to-bigWig conversion with normal

2 shared topics • 2 shared operations

Use when integrating R and Python with reticulate: importing Python modules from R, declaring Python dependencies with py_require(), selecting Python environments (use_python/use_virtualenv/use_condae

2 shared topics • 2 shared operations