Distribution plots of genes expression level
Html report from the result of the 'hyperGTest' function
FDR.BH
Multiple testing correction using FWER
Compute foldchange
Genes selection
Filter expression data
Correlation between Genes collection and Genes Array
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Text report from the 'hyperGTest' function
Multiple testing correction
Generalized version of intersect for n objects
Create all pairwise contrasts
Microarray color palette
Compute Jaccard distance on a data matrix
marty data
inverse
Text report from the result of the 'hyperGTest' function for KEGG
pathway analysis
marty class data for Basal vs HER2 cancer type
Compute survival curves and test difference between the curves
Function to create a txt and pdf report with the main statistics
and graphics of the MFA.
Barplot of component inertia percentage for PCA
Sample and variable representation on a same graph for PCA
Chisq test for ordinal values
Normalisation of Affymetrix expression arrays
Sample representation for Principal Component Analysis
Perform an Principal Component Analysis
Variable representation for Principal Component Analysis
SAM analysis with siggenes package
Computing Differential Analysis for each gene
Computing Multiple Wilcoxon Tests
Sample quality computation in PCA
Computing Multiple Student Tests
Function to perform a Multiple Factor Analysis.
Partial Least Squares
GSA analysis
Generalized version of setdiff for n objects
barplot of genes expression level
Run Gene Ontology analysis based on hypergeometric test from a probeset list
Plot the expression profiles of the probes corresponding to given probesets
Run KEGG pathway analysis based on hypergeometric test from a probeset list
Test linear combinations of parameters of a linear model
Test for nested ANOVA models
Kmeans and hierarchical clustering
eval.stability.clustering
Compares several clustering methods by means of its stability.
EMA - Easy Microarray Analysis
Convert labels to colors
Computes distances on a data matrix
Agglomerative hierarchical clustering
Compute Dice distance on a data matrix
Clustering plots for one or two ways representation
Annotation of probesets using biomaRt