covset

This is a covariate set containing variables/measurements of the pigs that
RNA-seq data were obtained.

datasets

A differential expression analysis method for RNA-seq data from repeated-measures design
using general linear model framework and parametric bootstrap inference. The method accounts for
the dependence of gene expression levels due to the repeated-measures through continuous autoregressive
correlation structure. The method is described in Chapter 4 of
Nguyen (2018) <https://lib.dr.iastate.edu/cgi/viewcontent.cgi?article=7433&context=etd>.

Yet Nguyen

rmRNAseq

RNA-Seq Analysis for Repeated-Measures Data

Dan Nettleton

Agata Michna

covset function

<code>covset</code> is a dataframe with 32 rows and 11 columns,
 correspinding to 32 RNA-seq sample from 8 pigs at 4 times. 11 columns
 include<dl class="dl-horizontal">
<dt>time</dt><dd>a continuous vector of mapping time points</dd>
 <dt>timef</dt><dd>a factor of original time points</dd> <dt>line</dt><dd>a factor of
 original line of each pig</dd> <dt>ear</dt><dd>ear id of each pig</dd> <dt>line2,
 time2, ...</dt><dd>the columns corresponding to design matrix transformation such that
 each column is a corresponding test statistics.</dd> </dl>

Format

Covariate Set Associated with RFI RNA-seq — covset

<code>covset</code> is a dataframe with 32 rows and 11 columns,
 correspinding to 32 RNA-seq sample from 8 pigs at 4 times. 11 columns
 include<dl class='dl-horizontal'>
<dt>time</dt><dd>a continuous vector of mapping time points</dd>
 <dt>timef</dt><dd>a factor of original time points</dd> <dt>line</dt><dd>a factor of
 original line of each pig</dd> <dt>ear</dt><dd>ear id of each pig</dd> <dt>line2,
 time2, ...</dt><dd>the columns corresponding to design matrix transformation such that
 each column is a corresponding test statistics.</dd> </dl>

covset: Covariate Set Associated with RFI RNA-seq

Description

Usage

Arguments

Format

Examples