RepViz: a replicate-driven R tool for visualizing genomic regions.

ABSTRACT:

Objective

Visualization of sequencing data is an integral part of genomic data analysis. Although there are several tools to visualize sequencing data on genomic regions, they do not offer user-friendly ways to view simultaneously different groups of replicates. To address this need, we developed a tool that allows efficient viewing of both intra- and intergroup variation of sequencing counts on a genomic region, as well as their comparison to the output of user selected analysis methods, such as peak calling.

Results

We present an R package RepViz for replicate-driven visualization of genomic regions. With ChIP-seq and ATAC-seq data we demonstrate its potential to aid visual inspection involved in the evaluation of normalization, outlier behavior, detected features from dif

SUBMITTER: Faux T 

PROVIDER: S-EPMC6642542 | biostudies-literature | 2019 Jul

REPOSITORIES: biostudies-literature