Bio::Phylo::Forest::DBTree ========================== An object-oriented API to operate on very large phylogenies stored in portable databases Release ------- The most recent release is: [![DOI](https://zenodo.org/badge/8080160.svg)](https://zenodo.org/badge/latestdoi/8080160) Requires -------- * [Bio::Phylo](http://search.cpan.org/dist/Bio-Phylo/) * [DBIx::Class](http://search.cpan.org/dist/DBIx-Class/) * [DBD::SQLite](http://search.cpan.org/dist/DBD-SQLite/) * An installation of [sqlite3](https://www.sqlite.org/) Installation ------------ This package can be installed in the standard ways, e.g. after downloading from this repository, using the `ExtUtils::MakeMaker` workflow: $ perl Makefile.PL $ make $ sudo make install Alternatively, the `cpanm` workflow can be used to install directly from github, i.e. $ sudo cpanm git://github.com/rvosa/bio-phylo-forest-dbtree.git Or, opting for the most recent [release](http://search.cpan.org/dist/Bio-Phylo-Forest-DBTree/) from CPAN, using: $ sudo cpanm Bio::Phylo::Forest::DBTree BUGS ---- Please report any bugs or feature requests on the GitHub bug tracker: https://github.com/rvosa/bio-phylo-forest-dbtree/issues BUILD STATUS ------------ Currently, the build status of the head revision at Travis is: [![Build Status](https://travis-ci.org/rvosa/bio-phylo-forest-dbtree.svg?branch=master)](https://travis-ci.org/rvosa/bio-phylo-forest-dbtree) The test results of the CPAN releases are here: http://www.cpantesters.org/distro/B/Bio-Phylo-Forest-DBTree.html COPYRIGHT & LICENSE ------------------- Copyright 2013-2017 Rutger Vos, All Rights Reserved. This program is free software; you can redistribute it and/or modify it under the same terms as Perl itself, i.e. a choice between the following licenses: - [The Artistic License](COPYING) - [GNU General Public License v3.0](LICENSE) SEE ALSO -------- Several curated, large phylogenies released by ongoing projects are made available as database files that this distribution can operate on. These are: - PhyloTree ([van Oven et al., 2009][1]) - [10.6084/m9.figshare.4620757.v1](http://doi.org/10.6084/m9.figshare.4620757.v1) - D-Place ([Kirby et al., 2016][2]) - [10.6084/m9.figshare.4620217.v1](http://doi.org/10.6084/m9.figshare.4620217.v1) - NCBI taxonomy ([Federhen, 2011][3]) - [10.6084/m9.figshare.4620733.v1](http://doi.org/10.6084/m9.figshare.4620733.v1) - Green Genes ([DeSantis et al., 2006][4]) - [10.6084/m9.figshare.4620214.v1](http://doi.org/10.6084/m9.figshare.4620214.v1) [1]: http://doi.org/10.1002/humu.20921 [2]: http://doi.org/10.1371/journal.pone.0158391 [3]: http://doi.org/10.1093/nar/gkr1178 [4]: http://doi.org/10.1128/AEM.03006-05