Significant Gene Expression Profile Differences in Time Course Gene Expression Data

[Up] [Top]

Documentation for package ‘maSigPro’ version 1.49.3

Help Pages

average.rows Average rows by match and index
data.abiotic Gene expression data potato abiotic stress
edesign.abiotic Experimental design potato abiotic stress
edesignCT Experimental design with a shared time
edesignDR Experimental design with different replicates
get.siggenes Extract significant genes for sets of variables in time series gene expression experiments
getDS Extract lists of significant isoforms from Differentially Spliced Genes (DSG)
getDSPatterns Lists of genes with Isoforms in different clusters
i.rank Ranks a vector to index
ISOdata RNA-Seq dataset example for isoforms
ISOdesign Experimental design for ISOdata dataset example
IsoModel Detection of genes with Isoforms with different gene expression in time course experiments
IsoPlot Plotting the isoform profiles of a specific gene by groups
make.design.matrix Make a design matrix for regression fit of time series gene expression experiments
maSigPro Wrapping function for identifying significant differential gene expression profiles in micorarray time course experiments
maSigProUsersGuide View maSigPro User's Guide
NBdata RNA-Seq dataset example
NBdesign Experimental design for RNA-Seq example
p.vector Make regression fit for time series gene expression experiments
PlotGroups Function for plotting gene expression profile at different experimental groups
PlotProfiles Function for visualization of gene expression profiles
PodiumChange Detection of Genes with switchs of their major isoforms
position Column position of a variable in a data frame
reg.coeffs Calculate true variables regression coefficients
see.genes Wrapper function for visualization of gene expression values of time course experiments
seeDS Wrapper function for visualization of significant isoforms from Differentially Spliced Genes
stepback Fitting a linear model by backward-stepwise regression
stepfor Fitting a linear model by forward-stepwise regression
suma2Venn Creates a Venn Diagram from a matrix of characters
T.fit Makes a stepwise regression fit for time series gene expression experiments
tableDS Identification of Mayor and minor Isoforms in the clusters
two.ways.stepback Fitting a linear model by backward-stepwise regression
two.ways.stepfor Fitting a linear model by forward-stepwise regression