# Characterizing Temporal Dysregulation

## Documentation for package ‘tempoR’ version 1.0.4.4

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

## Help Pages

dflatExample | A subset of the DFLAT gene sets
gse32472Example | A subset of the GSE32472 BPD data set
gse32472ExampleTempoResults | TEMPO results for the GSE32472 subset example data set
loadCLS | Load a categorical or continuous cls formatted file.
loadGCT | Load a Gene Cluster Text formatted file
loadGMT | Load a Gene Matrix Transposed formatted file
tempo.mkplot | Make a plot for a specified gene sets
tempo.permutationTest | Permutation testing for TEMPO
tempo.run | The main method.
tempo.runInstance | Build models for all pathways using the control data and test on the test population.
tempo.writeOutput | Write output