read.orfs: Read output of 'ORFpred'

In HajkD/LTRpred: De novo functional annotation of retrotransposons

Read output of ORFpred

Description

This function reads the output of the ORFpred function and stores the sequence id and number of predicted ORFs in a data.frame object.

Usage

read.orfs(input.file)

Arguments

input.file

fasta file generated by ORFpred.

Details

The file generated by ORFpred is parsed by this function and returned as data.frame object.

Value

A data.frame object storing the seq.id, orfs (number of predicted ORFs), start, and end of the predicted LTRs.

Author(s)

Hajk-Georg Drost

See Also

ORFpred, LTRpred

Examples

# read an example prediction file generated by PredictORFs()
ORFPred <- read.orfs(system.file("nt.fa",package = "LTRpred"))

head(ORFPred)

HajkD/LTRpred documentation built on April 22, 2022, 4:35 p.m.