# Dysregulated Pathway Identification Analysis

## Documentation for package ‘DysPIA’ version 1.3

- DESCRIPTION file.

## Help Pages

calcDyspiaStat | calcDyspiaStat: Calculates DysPIA statistics
calcDyspiaStatCumulative | Calculates DysPIA statistic values for all the prefixes of a gene pair set
calcDyspiaStatCumulativeBatch | Calculates DysPIA statistic values for the gene pair sets
calEdgeCorScore_ESEA | calEdgeCorScore_ESE
class.labels_p53 | Example vector of category labels.
DysGPS | DysGPS: Calculates Dysregulated gene pair score (DysGPS) for each gene pair
DysGPS_p53 | Example vector of DysGPS in p53 data.
DysPIA | DysPIA: Dysregulated Pathway Identification Analysis
DyspiaRes_p53 | Example list of DysPIA result in p53 data.
DyspiaSig | DyspiaSig
DyspiaSimpleImpl | DyspiaSimpleImpl
gene_expression_p53 | Example matrix of gene expression value.
sample_background | Example list of gene pair background.
setUpBPPARAM | setUpBPPARAM