addSqtlAltrans: Add results from Altrans splicingQTL algorithm to list

In mglR: Master Gene List

Description

addSqtlAltrans returns an 'mgl' list with the sixteenth element as a dataframe containing results from Altrans splicingQTL algorithm from GTEx; see http://www.gtexportal.org

Usage

addSqtlAltrans(mgl, download = TRUE, saveDownload = FALSE,
  fpsource = "./")

Arguments

mgl	List; see buildFromNames, buildFromRegion, or buildFromEnsgs
download	A logical vector indicating if the data should be downloaded.
saveDownload	A logical vector indicating if the data should be saved as 'RawData_sqtlAltrans.RData'
fpsource	A character string of with the filepath where the data has been downloaded

Details

This gives the Altrans algorithm results for each gene. Data is downloaded from the GTEx website http://www.gtexportal.org/static/datasets/gtex_analysis_pilot_v3/splicing_qtls_sqtls/Altrans_FDR05_bestPerLink.tgz.

See Also

Other elements: addAei, addAntisense, addCisEqtl, addDnase, addEnst, addExpression, addGo, addGrasp, addGwasCatalog, addLoc, addPtv, addPubmed, addSqtlSeek, addTransEqtl, missNames

Examples

## Not run: buildFromRegion(chr = 2, start = 102314000, stop = 103435000) -> myMgl
## Not run: myMgl <- addSqtlAltrans(myMgl)

mglR documentation built on May 29, 2017, 4:07 p.m.