BED2txDb: Bedgraph to TranscriptDb object

In RNAprobR: An R package for analysis of massive parallel sequencing based RNA structure probing data

Description

Function to transform BED format file to Bioconductor TranscriptDb object

Usage

BED2txDb(input_bed_path)

Arguments

input_bed_path

Path to BED file. If 12 column BED provided, function is splice aware. If 6 column BED provided, function assumes no splicing.

Value

TranscriptDb object

Author(s)

Lukasz Jan Kielpinski, Nikos Sidiropoulos

Examples

write(paste(c("chr1", 134212702, 134229870, "ENSMUST00000072177", 0, "+",
             134212806, 134228958, 0, 8, "347,121,24,152,66,120,133,1973,",
             "0,8827,10080,11571,12005,13832,14433,15195,"), collapse = "\t"),
      file="dummy.bed")
BED2txDb("dummy.bed")

RNAprobR documentation built on Nov. 8, 2020, 5:57 p.m.