Integrated differential expression (DE) and differential co-expression (DC) analysis on gene expression data based on DECODE (DifferEntial CO-expression and Differential Expression) algorithm.
|Author||Thomas Lui [aut, cre]|
|Date of publication||2015-07-14 20:40:34|
|Maintainer||Thomas Lui <firstname.lastname@example.org>|
getAssoGeneSetPValue: Calculate the p-value between selected genes and functional...
getBestAssociatedGeneSet: Get best associated functional gene sets for partitions of...
getBonferroniPValue: Adjust p-value by Bonferroni correction
getDE_DC_OptimalThreshold: Perform chi-square optimization
getFDR: Adjust p-value by Benjamini and Hochberg method
getPartitionIndex: Get gene index of 8 partitions for gene i
getPathway: read functional gene sets
openFileToWrite: Open file to write result
runDecode: Differential Co-Expression and Differential Expression...
sumResult_MinGain: Summarize the functional gene set results into text file