get_full_bed: Generates a full comprehensive 3'UTR bed 6 file by...

In TBradley27/filtar_R: A Series of Support Functions for the Main Filtar Workflow

Description

Generates a full comprehensive 3'UTR bed 6 file by integrating information from a canonical bed 6 file and APAtrap reannotations

Usage

get_full_bed(normal_bed_file, extended_bed_file, all_transcripts_file,
  tx_quant_file)

Arguments

normal_bed_file	A 3'UTR bed 6 file in standard format
extended_bed_file	APAtrap output. Some records will correspond to accessions in a normal_bed_file, whilst some records will reference accessions not found in a normal_bed_file
all_transcripts_file	A single column list of all transcript files used to re-add transcript version information to all records
tx_quant_file	A salmon transcript quantification output file

Value

A complete bed6 file in standard format in which information from all parameters have been integrated, and in which transcript accession verison information is included

TBradley27/filtar_R documentation built on May 19, 2019, 8:56 p.m.