phylogenetics with databases
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README

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...