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TcGSA (version 0.10.1)

Time-Course Gene Set Analysis

Description

Implementation of TcGSA, a method for analyzing longitudinal gene-expression data at the gene set level.

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Version

Install

install.packages('TcGSA')

Monthly Downloads

254

Version

0.10.1

License

GPL-2 | file LICENSE

Maintainer

Boris P Hejblum

Last Published

December 22nd, 2015

Functions in TcGSA (0.10.1)

signifLRT.TcGSA

Identifiying the Significant Gene Sets

TcGSA.LR

Computing the Likelihood Ratios for the Gene Sets under Scrutiny

summary.TcGSA

Summarizing TcGSA

TcGSA-package

Time-course Gene Set Analysis

clustTrend

Cluster the genes dynamics into different dominant trends.

multtest.TcGSA

Computing the P-value of the Likelihood Ratios Applying a Multiple Testing Correction

plotPat.1GS

Plotting a Specific Gene Set Stratifying on Patients

plotPat.TcGSA

Plot a Gene Set Trends Heatmap for each Patient.

plotFit.GS

Plotting function for exploring the fittness of the mixed modeling used in TcGSA

pval_simu

Computing P-values with a Simulated Sample from the Null Distribution

plot.TcGSA

Plot a Gene Set Trends Heatmap.

TcGSA.LR.parallel

Parallel computing the Likelihood Ratios for the Gene Sets under Scrutiny

plot1GS

Plotting a Specific Gene Set

plotSelect.GS

Plotting (several) Selected Gene Set(s) in some Subjects

data_simu_TcGSA

Simulated Data for TcGSA

rmixchisq

Random Generation of Chi-square Mixtures

TcGSA-internal

Internal TcGSA Functions