gwcex2gviz {gwascat} | R Documentation |
Prepare salient components of GWAS catalog for rendering with Gviz
gwcex2gviz(basegr, contextGR = GRanges(seqnames = "chr17", IRanges(start = 37500000, width = 1e+06)), txrefpk = "TxDb.Hsapiens.UCSC.hg19.knownGene", genome = "hg19", genesympk = "Homo.sapiens", plot.it = TRUE, maxmlp = 25)
basegr |
gwaswloc instance containing information about GWAS in catalog |
contextGR |
A GRanges instance delimiting the visualization in genomic coordinates |
txrefpk |
a TxDb package, typically |
genesympk |
string naming annotationDbi .db package |
genome |
character tag like 'hg19' |
plot.it |
logical, if FALSE, just return list |
maxmlp |
maximum value of -10 log p – winsorization of all larger values is performed, modifying the contents of Pvalue\_mlogp in the elementMetadata for the call |
args(gwcex2gviz) #gwascat:::.onAttach("", "gwascat") data(ebicat37) seqlevelsStyle(ebicat37) = "UCSC" gwcex2gviz(ebicat37)