setCheck: Get the overlap between a list of genes and a list of gene...

In Solatar/setR:

Description

Get the overlap between a list of genes and a list of gene sets

Usage

setCheck(genes, sets, IDtype = "SYMBOL", dropRows = T)

Arguments

genes	list or vector of strings, each is a gene identifier
sets	list of vectors (gene sets) with EntrezIDs as gene identifiers
IDtype	type of ID that is used in the input parameter 'genes' (anything used in mapIds, e.g. "ENTREZID" or "SYMBOL")
dropRows	boolean, indicating whether rows without any matches should be filtered out

Value

a vector of strings. Each string is present in at least x sets, where x is minOverlap

Examples

IDs1 <- setRead("up", path=myPath1)
IDs2 <- setRead("up", path=myPath2)
set1 <- setMake("mySet", IDs1, "Homo sapiens")
set2 <- setMake("mySet", IDs2, "Homo sapiens")
setSave(list(set1, set2), myFolder)

Solatar/setR documentation built on Dec. 5, 2020, 10:50 p.m.