rna2mod: rna2mod

In MoonFinder: Identify Moonlighting ncRNAs

Description

Construct a 0-1 binary matrix to represent the association between RNAs and protein modules.

Usage

rna2mod(rna2prot, modlist, pCutoff = 0.01, bgProtNum)

Arguments

rna2prot	two-column matrix with each row shows the binary association between RNA and protein.
modlist	a list of protein modules.
pCutoff	threshold of the P-value for enrichment analysis.
bgProtNum	the number of background proteins.

Value

rna2module	N x M 0-1 binary matrix of N RNA and M module.
moduleList	a list of modules targeted by at least one RNA.

Author(s)

Lixin Cheng <[e-mail]>

References

MoonFinder: a framework for the identification of moonlighting non-coding RNAs.

Examples

data(rna2protein)
data(combinedModuleList)
data(uniGene)
uniGeneNum = length(uniGene)
result = rna2mod(rna2protein[1:100,],combinedModuleList,
    pCutoff = 0.01,uniGeneNum)
rna2module = result[[1]]
moduleList = result[[2]]

MoonFinder documentation built on Oct. 30, 2019, 11:31 a.m.