R: Time-Course Gene Set Analysis

# Time-Course Gene Set Analysis

## Documentation for package ‘TcGSA’ version 0.12.13

- DESCRIPTION file.
- User guides, package vignettes and other documentation.
- Package NEWS.

## Help Pages

TcGSA-package | Time-course Gene Set Analysis
chisqmix | Chi-Squared Mixtures Distribution
ClusteredTrends | Cluster the genes dynamics into different dominant trends.
clustTrend | Cluster the genes dynamics into different dominant trends.
data_simu_TcGSA | Simulated Data for TcGSA
dchisqmix | Chi-Squared Mixtures Distribution
design | Simulated Data for TcGSA
expr_1grp | Simulated Data for TcGSA
expr_2grp | Simulated Data for TcGSA
gmt_sim | Simulated Data for TcGSA
multtest.TcGSA | Computing the P-value of the Likelihood Ratios Applying a Multiple Testing Correction
pchisqmix | Chi-Squared Mixtures Distribution
plot.ClusteredTrends | Cluster the genes dynamics into different dominant trends.
plot.TcGSA | Plot a Gene Set Trends Heatmap.
plot1GS | Plotting a Specific Gene Set
plotFit.GS | Plotting function for exploring the fitness of the mixed modeling used in TcGSA
plotMultipleGS | Plotting Multiple Gene Sets in a single plot
plotPat.1GS | Plotting a Specific Gene Set Stratifying on Patients
plotPat.TcGSA | Plot a Gene Set Trends Heatmap for each Patient.
plotSelect.GS | Plotting (several) Selected Gene Set(s) in some Subjects
print.ClusteredTrends | Cluster the genes dynamics into different dominant trends.
print.summary.TcGSA | Summarizing TcGSA
print.TcGSA | Computing the Likelihood Ratios for the Gene Sets under Scrutiny
print.TcGSA.LR | Computing the Likelihood Ratios for the Gene Sets under Scrutiny
qchisqmix | Chi-Squared Mixtures Distribution
rchisqmix | Chi-Squared Mixtures Distribution
signifLRT.TcGSA | Identifying the Significant Gene Sets
summary.TcGSA | Summarizing TcGSA
TcGSA | Time-course Gene Set Analysis
TcGSA.LR | Computing the Likelihood Ratios for the Gene Sets under Scrutiny
TcGSA.LR.parallel | Parallel computing the Likelihood Ratios for the Gene Sets under Scrutiny