checkCountTable

Check the Regularity of a Count Table

Chromatin immunoprecipitation followed by high-throughput
sequencing (ChIP-seq) is the premier technology for profiling genome-wide
localization of chromatin-binding proteins, including transcription
factors and histones with various modifications.
This package provides a robust method for normalizing ChIP-seq
signals across individual samples or groups of samples. It also designs
a self-contained system of statistical models for calling differential
ChIP-seq signals between two or more biological conditions as well as
for calling hypervariable ChIP-seq signals across samples. Refer to
Tu et al. (2021) <doi:10.1101/gr.262675.120> and
Chen et al. (2022) <doi:10.1186/s13059-022-02627-9>
for associated statistical details.

Shiqi Tu

MAnorm2

Tools for Normalizing and Comparing ChIP-seq Samples

checkCountTable function

<dl><dt>counts</dt>
<dd>A matrix consisting of read counts. Objects of other
types are coerced to a matrix.</dd></dl>

Arguments

Check the Regularity of a Count Table — checkCountTable

<dl>

<dt>counts</dt>
<dd>A matrix consisting of read counts. Objects of other
types are coerced to a matrix.</dd>

</dl>

checkCountTable: Check the Regularity of a Count Table

Description

Usage

Value

Arguments