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