Sanson_CRISPRn_A375

A benchmark CRISPRn pooled screen data from Sanson et al.

datasets

Provides functions for hit gene identification and quantification of sgRNA (single-guided RNA) abundances for CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) pooled screen data analysis.
Details are in Jeong et al. (2018) <doi:10.1101/309302> and Baggerly et al. (2003) <doi:10.1093/bioinformatics/btg173>.

Hyun-Hwan Jeong

CRISPR Pooled Screen Analysis using Beta-Binomial Test

Sanson_CRISPRn_A375 function

The data object is a list and contains below information:<dl class="dl-horizontal">
 <dt>count</dt><dd>The count matrix from Sanson et al.'s paper and contains the CRISPRn screening result using A375 cell-line. 
 It contains a sample of plasimd, and three biological replicates after three weeks.</dd>
 <dt>egenes</dt><dd>The list of 1,580 essential genes used in Sanson et al.'s study.</dd>
 <dt>ngenes</dt><dd>The list of 927 non-essential genes used in Sanson et al.'s study.</dd>
 <dt>design</dt><dd>The data.frame contains study design.</dd>
</dl>

Format

A benchmark CRISPRn pooled screen data from Sanson et al. — Sanson_CRISPRn_A375

The data object is a list and contains below information:<dl class='dl-horizontal'>
 <dt>count</dt><dd>The count matrix from Sanson et al.'s paper and contains the CRISPRn screening result using A375 cell-line. 
 It contains a sample of plasimd, and three biological replicates after three weeks.</dd>
 <dt>egenes</dt><dd>The list of 1,580 essential genes used in Sanson et al.'s study.</dd>
 <dt>ngenes</dt><dd>The list of 927 non-essential genes used in Sanson et al.'s study.</dd>
 <dt>design</dt><dd>The data.frame contains study design.</dd>
</dl>

Sanson_CRISPRn_A375: A benchmark CRISPRn pooled screen data from Sanson et al.

Description

Usage

Arguments

Format