checkIndex

Check the Validity of an Index Vector

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

checkIndex function

<dl><dt>index</dt>
<dd>An index vector for subsetting columns of a data frame.</dd>
<dt>ns</dt>
<dd>A character vector of variable names in the data frame.</dd>
<dt>var.name</dt>
<dd>The index variable name. Simply used to generate potential
error messages.</dd></dl>

Arguments

Check the Validity of an Index Vector — checkIndex

<dl>

<dt>index</dt>
<dd>An index vector for subsetting columns of a data frame.</dd>


<dt>ns</dt>
<dd>A character vector of variable names in the data frame.</dd>


<dt>var.name</dt>
<dd>The index variable name. Simply used to generate potential
error messages.</dd>

</dl>

checkIndex: Check the Validity of an Index Vector

Description

Usage

Value

Arguments