FragGeneScan++
An improved version of FragGeneScan-Plus.
Installing
To build/install FragGeneScan++ from source, you will need Meson. run the following commands from the source repository:
meson build
ninja -C build
sudo ninja -C build install
Running
An example usage of FragGeneScan++ looks like the following:
FGS++ -s example/NC_000913-454.fna -o output -w 0 -t 454_5 -p 16
For more info or a list of all options, run FragGeneScan++ without arguments.
Documentation
To get the most recent version of the documentation, issue the following command:
ninja -C build docs
The documentation can then be viewed by opening build/doc/html/index.html
in
your favorite browser.
Output files
Upon completion, FragGeneScan++ can generate 3 files:
- The
[output_file].faa
file lists amino acid sequences in FASTA format corresponding to the putative genes. The[output_file].faa
file is always generated. - The
[output_file].ffn
file lists the nucleotide sequences in FASTA format corresponding to the putative genes. This file is not automatically generated: to obtain this file, set the-d
flag to 1. - The
[output_file].out
file lists the coordinates of putative genes. This file consists of 5 columns ( start position, end position, strand, frame, and score). This file is not automatically generated: to obtain this file, set the-e
flag to 1.
License
FragGeneScan++ is released under under the terms of the GNU General Public License, version 3 (or any later version), as published by the Free Software Foundation.
Please see the LICENSE file for further information.