enrich: Performs hypergeometric test of association between miR...

In syspremed/PanNETassigner: A cross-species analysis in pancreatic neuroendocrine tumors reveals molecular subtypes with distinctive clinical, metastatic, developmental, and metabolic characteristics.

Description

This function use Hypergemotric test to determine association between miR and mRNA subtypes.

Usage

enrich(labels1, labels2, outfile)

Arguments

labels1	EnrichmentAnalysis.labels1 contain the miR subtype labels and the first column contain the sample names.
labels2	EnrichmentAnalysis.labels2 contain the mRNA subtype labels and the first column contain the sample names.
outfile	Provide the name of the output file, i.e. "miR_subtypes-mRNA_subtypes.txt".

Details

Hypergemotric test is used to determine association between miR in and mRNA subtypes, in EnrichmentAnalysis.labels1 and EnrichmentAnalysis.labels2 respectively.

Value

The output of this function is a heatmap showing the relationships between the miR and mRNA subtypes. Red colour denotes strong association and other colors indicate that there is no assocation. This is saved in your working directory under PanNetResults/Enrichment folder.

Author(s)

Anguraj Sadanandam [e-mail]

References

Anguraj Sadanandam, et all (2015). A cross-species analysis in pancreatic neuroendocrine tumors reveals molecular subtypes with distinctive clinical, metastatic, developmental, and metabolic characteristics. Accepted.

Examples

## Two datasets are required for this function and please provide the output filename. 
data(EnrichmentAnalysis.labels1)
data(EnrichmentAnalysis.labels2)
outfile<-"miR_subtypes-mRNA_subtypes.txt"
## Run the function
enrich(EnrichmentAnalysis.labels1, EnrichmentAnalysis.labels2, outfile)

syspremed/PanNETassigner documentation built on May 31, 2019, 12:48 a.m.