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 |