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.