# Systems EPigenomics Inference of Regulatory Activity

## Documentation for package ‘SEPIRA’ version 1.6.0

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

## Help Pages

ComputePCOR | Compute partial correlation coefficient
GeneExp | RNA-seq data matrix from GTEx
InferTFact | Estimate TF activity score in a sample
InferTFactPRL | Estimate TF activity score in different samples
LimmaFn | Do differential gene expression/ differential DNA methylation analysis
LUSCexp | LUSC RNA-seq dataset
LUSCmeth | LUSC DNA methylation dataset
sepiraInfNet | Infer tissue-specific regulatory network from gene expression data
sepiraRegAct | Infer TF activity from gene expression/ DNA methylation profile
TFeid | Transcription factor genes annotated using Entrez gene ID
VALexp | RNA-seq data matrix from ProteinAtlas project