ExampleRNAseq

A simulated example dataset of RNAseq for PQLseq.

datasets

An efficient tool designed for differential analysis of large-scale RNA sequencing (RNAseq) data and Bisulfite sequencing (BSseq) data in the presence of individual relatedness and population structure. 'PQLseq' first fits a Generalized Linear Mixed Model (GLMM) with adjusted covariates, predictor of interest and random effects to account for population structure and individual relatedness, and then performs Wald tests for each gene in RNAseq or site in BSseq.

Jiaqiang Zhu

PQLseq

Efficient Mixed Model Analysis of Count Data in Large-Scale
Genomic Sequencing Studies

ExampleRNAseq function

Contains the following objects:<dl class="dl-horizontal">
 	<dt>count</dt><dd>a data frame containing the read counts for 5 genes.</dd>
 <dt>predictor</dt><dd>a vector of 100 observations on a continuous variable.</dd>
 <dt>relatednessmatrix</dt><dd>a genetic relationship matrix for 100 individuals.</dd>
 <dt>totalcount</dt><dd>a data frame containing the total read counts for 5 genes.</dd>
 </dl>

Format

RNAseq example dataset — ExampleRNAseq

Contains the following objects:<dl class='dl-horizontal'>
 	<dt>count</dt><dd>a data frame containing the read counts for 5 genes.</dd>
 <dt>predictor</dt><dd>a vector of 100 observations on a continuous variable.</dd>
 <dt>relatednessmatrix</dt><dd>a genetic relationship matrix for 100 individuals.</dd>
 <dt>totalcount</dt><dd>a data frame containing the total read counts for 5 genes.</dd>
 </dl>

ExampleRNAseq: RNAseq example dataset

Description

Usage

Arguments

Format