read.outfmt6: Read outfmt6 file

In FemeniasM/ExplorATEproject: Explore Active Transposable Elements from RNAseq data

Read outfmt6 file

Description

reads a annotations file in output format 6

Usage

read.outfmt6(file)

Arguments

file	outfmt6 file

Details

This function read a annotations file in output format 6 and rename columns as:

seqid

query (e.g., unknown gene) sequence id

sseqid

subject (e.g., reference genome) sequence id

pident

percentage of identical matches

length

alignment length (sequence overlap)

mismatch

number of mismatches

gapopen

number of gap openings

qstart

start of alignment in query

qend

end of alignment in query

sstart

start of alignment in subject

send

end of alignment in subject

evalue

expect value

bitscore

bit score

FemeniasM/ExplorATEproject documentation built on Nov. 30, 2022, 5:26 p.m.