Time-Course Gene Set Analysis
Chi-Squared Mixtures Distribution
Cluster the genes dynamics into different dominant trends.
Computing the P-value of the Likelihood Ratios Applying a Multiple Tes...
Plot a Gene Set Trends Heatmap.
Plotting a Specific Gene Set
Plotting function for exploring the fitness of the mixed modeling used...
Plotting Multiple Gene Sets in a single plot
Plotting a Specific Gene Set Stratifying on Patients
Plot a Gene Set Trends Heatmap for each Patient.
Plotting (several) Selected Gene Set(s) in some Subjects
Computing P-values with a Simulated Sample from the Null Distribution
Identifying the Significant Gene Sets
Summarizing TcGSA
Internal TcGSA Functions
Time-course Gene Set Analysis
Parallel computing the Likelihood Ratios for the Gene Sets under Scrut...
Computing the Likelihood Ratios for the Gene Sets under Scrutiny
Implementation of Time-course Gene Set Analysis (TcGSA), a method for analyzing longitudinal gene-expression data at the gene set level. Method is detailed in: Hejblum, Skinner & Thiebaut (2015) <doi: 10.1371/journal.pcbi.1004310>.