| gwcex2gviz {gwascat} | R Documentation |
Prepare salient components of GWAS catalog for rendering with Gviz
gwcex2gviz(
basegr,
contextGR = GRanges(seqnames = "chr17", IRanges::IRanges(start = 37500000, width =
1e+06)),
txrefobj = TxDb.Hsapiens.UCSC.hg19.knownGene::TxDb.Hsapiens.UCSC.hg19.knownGene,
genome = "hg19",
genesymobj = org.Hs.eg.db::org.Hs.eg.db,
plot.it = TRUE,
maxmlp = 25
)
basegr |
gwaswloc instance containing information about GWAS in catalog |
contextGR |
A GRanges instance delimiting the visualization in genomic coordinates |
txrefobj |
a TxDb instance |
genome |
character tag like 'hg19' |
genesymobj |
an OrgDb instance |
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 |
data(ebicat37) GenomeInfoDb::seqlevelsStyle(ebicat37) = "UCSC" gwcex2gviz(ebicat37)