Trackplot: a fast and lightweight R script for epigenomic enrichment plots.

ABSTRACT:

Motivation

BigWig files serve as essential inputs in epigenomic data visualization. However, current R packages for visualizing these files are limited, slow, and burdened by numerous dependencies.

Results

We introduce trackplot, a minimal R script designed for the rapid generation of integrative genomics viewer (IGV) style track plots, profile plots, and heatmaps from bigWig files. This script offers speed, owing to its reliance on bwtool, resulting in performance gains of several magnitudes compared to equivalent packages. The script is lightweight, requiring only the data.table and bwtool packages as primary dependencies. Notably, the plots are generated in base R graphics, eliminating the need for additional packages. trackplot queries

SUBMITTER: Mayakonda A 

PROVIDER: S-EPMC10932608 | biostudies-literature | 2024

REPOSITORIES: biostudies-literature