getQueryLoc {branchpointer} | R Documentation |
Finds the closest annotated exons from genomic co-ordinates in a branchpointer query GRanges
getQueryLoc(query, queryType, maxDist = 50, filter = TRUE, exons)
query |
branchpointer query GenomicRanges must have chromosome at position 2, genomic co-ordinate at position 3, and strand at position 4. |
queryType |
type of query file ( |
maxDist |
maximum distance a SNP can be from an annotated 3' exon. |
filter |
remove SNP queries prior to finding finding nearest exons. |
exons |
data.frame containing exon co-ordinates. Should be produced by gtfToExons() |
GenomicRanges with the query and its location relative to the 3' and 5' exons
Beth Signal