# Platform for integrative analysis of omics data

## Documentation for package ‘piano’ version 2.12.1

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

## Help Pages

piano-package | Piano - Platform for Integrative ANalysis of Omics data
consensusHeatmap | Heatmap of top consensus gene sets
consensusScores | Top consensus gene sets and boxplot
diffExp | Perform differential expression analysis
exploreGSAres | Explore GSA results
extractFactors | Extracts 'ArrayData' factors
geneSetSummary | Gene set summary
GSAheatmap | Heatmap of top significant gene sets
GSAsummaryTable | Gene set analysis summary table
gsa_input | Random input data for gene set analysis
gsa_results | Gene set analysis result data
loadGSC | Load a gene set collection
loadMAdata | Load and preprocess microarray data
networkPlot | Gene set network plot
networkPlot2 | Gene set network plot
piano | Piano - Platform for Integrative ANalysis of Omics data
polarPlot | Polar plot
runGSA | Gene set analysis
runGSAhyper | Gene set analysis with Fisher's exact test
runQC | Run quality control
writeFilesForKiwi | Write files for Kiwi