# Mean Log P Analysis

## Documentation for package ‘MLP’ version 1.60.0

- DESCRIPTION file
- User guides, package vignettes and other documentation
- Package NEWS

## Help Pages

addGeneSetDescription | Utility function which adds the biological description of the gene sets as a column to the return value of the MLP function (data frame)
getGeneSets | Prepare Pathway Data for the MLP Function
MLP | This function calculates p-values for each gene set based on row permutations of the gene p values or column permutations of the expression matrix; the p values can be obtained either as individual gene set p values or p values based on smoothing across gene sets of similar size.
mlpBarplot | Draw a Barplot for MLP Results
plot.MLP | Plot the Results of an MLP Run
plotGeneSetSignificance | Plot the Significance for the Genes of a Given Gene Set
plotGOgraph | Graphical Representation of GO Based MLP Results