identify BLAST hits between two datasets by employing a third intermediate dataset. These hits are designated as hidden orthologs. The scripts directory includes scripts used in the analysis of these hidden orthologs.
https://github.com/josephryan/leapfrog (click the "Download ZIP" button at the bottom of the right column).
General system tools:
- [Perl] (http://www.cpan.org/), comes with most operating systems
leapfrog and documentation, type the following:
perl Makefile.PL make sudo make install
If you do not have permission to install to the system see the following:
leapfrog [--eval=EVALUECUTOFF] [--help] [--version] --1v2=TABBLAST --2v1=TABBLAST --1v3=TABBLAST --2v3=TABBLAST --3v2=TABBLAST
Documentation is embedded inside of
leapfrog in POD format and
can be viewed by running any of the following:
leapfrog --help perldoc leapfrog man leapfrog # available after installation
COPYRIGHT AND LICENSE
Copyright (C) 2015 Joseph F. Ryan
This program is free software: you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
This program is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details.
You should have received a copy of the GNU General Public License along with this program in the file LICENSE. If not, see http://www.gnu.org/licenses/.