README

Overview

gfftk is a toolkit to examine GFF files and extract specific entries. The core functions to parse GFF file can be used in own projects. A simple example is given in the examples directory.

Currently ongoing

• Implementing the extraction of specific entries directly from the source FASTA file
• Code documentation

Requirements

• GCC >= 9.0.0

Build

$: git clone https://github.com/usadellab/gfftk.git
$: cd gfftk && mkdir build && cd $_ && ln -s ../config/Makefile
$: make gfftk

This should compile a gfftk executable.

Examples

$: ./gfftk
$: ./gfftk extract -h
# Extract longest CDS and the corresponding prtotein_id attribute
$: ./gfftk extract -i GCF_000188115.4.ncbi.gff -t cds -l -a protein_id