Mercurial > repos > petr-novak > repeat_annotation_pipeline3

view get_gff_part.R @ 7:acf12f2e8355 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
"planemo upload commit 363c9be36812ce7623dad670f881d155209ed2ba"
author petr-novak
date Thu, 19 May 2022 08:37:22 +0000
parents ea6a3059a6af
children
line wrap: on
line source

#!/usr/bin/env Rscript
suppressPackageStartupMessages(library(rtracklayer))
g = import(commandArgs(T)[1])
gd = mcols(g)
col_name=commandArgs(T)[2]
col_value=commandArgs(T)[3]
inc = gd[,col_name] %in% col_value
g_part = sort(sortSeqlevels(g[inc]))
export(g_part, format = 'gff3', commandArgs(T)[4])