setMake: Create a gene set

In Solatar/setR:

Description

Imports: GSEABase, AnnotationDbi, limma

Usage

setMake(name, IDs, species, translate = NA, pmids = "", desc1 = "", desc2 = "")

Arguments

name	string, give the set a short descriptive name
IDs	vector of identifiers (strings or integers)
species	string, either "Homo sapiens" or "Mus musculus"
translate	string, translate IDs to EntrezIDs. Must be avlid for mapIds (e.g. "SYMBOL" or "ENSEMBL")
pmids	string, Pubmed ID
desc1	string, e.g. GSE-ID, Material, Comparison
desc2	string, e.g. Experiment (RNA-Seq, Microarray etc.), Acquisition (was the set given in the supplement or calculated by yourself, what parameters were used?)

Value

Vector of human Entrez IDs (or, if matrix=T, a matrix of mouse and human Entrez IDs)

Examples

IDs <- setRead("up", path=myPath)
set <- setMake("mySet", IDs, "Homo sapiens")

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