trans_cor: transform one hg coordinates to another

In primirTSS: Prediction of pri-miRNA Transcription Start Site

Description

Convert coordinates between different genomes when necessary.

Usage

trans_cor(peak, hg_from, hg_to)

Arguments

peak	A GRange object. The genome, the coordinates of which need to be coverted.
hg_from	The genome are coverting from. This parameter can be "hg18", "hg19" or "hg38", etc.
hg_to	Which type the genome is converting to. This parameter can be "hg18", "hg19" or "hg38", etc. NOTICE hg_from and hg_to should be different from each other.

Value

A GRanges object.

Examples

peak_df <- data.frame(chrom = c("chr7", "chr7", "chr7"),
                      chromStart = c(128043908, 128045075, 128046242),
                      chromEnd = c(128045074, 128046241, 128047408),
                      stringsAsFactors = FALSE)
peak <-  as(peak_df, "GRanges")

trans_cor(peak, "hg19", "hg38")

primirTSS documentation built on Nov. 8, 2020, 7:11 p.m.