trimmGMAP: Alignment trimming

In BMILAB/AStrap: Identificantion of alternative splicing events and classificaiton of alternative splicing types

Description

This function is to treat redundant sequence alignment and remove the invalid sequence alignments.

Usage

trimmGMAP(gmap.file)

Arguments

gmap.file

A string for the name of a GFF3 file of pairwise sequence alignments output by GMAP.

Value

A data frame holds trimmed sequence alignment.

Examples

##Load example data
gmap.path <- system.file("extdata","example_gmap.gff3",package = "AStrap")
trimmed.ali <- trimmGMAP(gmap.path)

BMILAB/AStrap documentation built on Nov. 20, 2020, 4:03 p.m.