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phylogenetics with databases
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PHLAWD ====== There are several verisons of phlawd floating around: * The official version of phlawd at https://github.com/blackrim/phlawd entered maintenance mode Sep 2012 and has not had its code updated since then. * The "chinchliff" fork of phlawd was last updated in Mar 2016 and contains a number of bug fixes and features, including the ability to use whole genome sequences and "shrinking" to the target gene. This is an unofficial fork, which updates the code for the GenBank ID change (https://www.ncbi.nlm.nih.gov/news/03-02-2016-phase-out-of-GI-numbers/) and downloads GenBank daily updates in addition to the regular releases. Requirements ------------ phlawd requires the GCC compiler, as well as wget, mafft, muscle, quicktree, and sqlite to be in the user's path. These can be installed via Homebrew (https://brew.sh) on macOS or Linuxbrew (https://linuxbrew.sh). Installation ------------ git clone https://github.com/jonchang/phlawd.git cd phlawd/ cd src/ ./configure make install PHLAWD /usr/local/bin # or wherever...