produceOutputFiles: Save Gene Information to group Specific Output Files

In biscuit13161/UNGeneAnno: Collate Gene Annotation Data from Uniprot and NIH Gene Databases

Description

produceOutputFiles saves the downloaded gene summary information into group specific files.

Usage

produceOutputFiles(x, ggl, gs, pub)

## S4 method for signature 'geneanno,vector,vector,missing'
produceOutputFiles(x, ggl, gs)

## S4 method for signature 'geneanno,vector,vector,vector'
produceOutputFiles(x, ggl, gs,
  pub)

Arguments

x	object of class geneanno.
ggl	a Vector of group specific vectors relating the list of genes to the groups, as in the input file
gs	Vector of Gene Summary information downloaded from NIH and Uniprot databases, typically output by getGeneSummary
pub	Matrix containing journal article information from the PubMed resource, as retruned by the searchPublications function

Value

This function has no return value as outputs directly to file.

Methods (by class)

• x = geneanno,ggl = vector,gs = vector,pub = missing: Save object data to text files.

• x = geneanno,ggl = vector,gs = vector,pub = vector: Save object data, including journal articles, to text files.

Examples

data("genematrix")
data("genesummary")
ggl <- getGroupGeneList(mygeneanno,mygenematrix)
data("publications")
produceOutputFiles(mygeneanno,ggl,mygenesummaries,mypublications)

biscuit13161/UNGeneAnno documentation built on May 26, 2019, 2:33 a.m.