phy2nex

Convert phylip file to nexus with option to include partition file

Installation

1. Nim must be installed in order to compile. For instructions on installing Nim, see the documentation here

2. Download script wget https://raw.githubusercontent.com/kerrycobb/phy2nex/master/phy2nex.nim

3. Compile script with nim --run c -o:phy2nex phy2nex.nim

4. Place compiled binary in your path with mv phy2nex /usr/local/bin

Usage

Usage:
  phy2nex INPUT [OUTPUT] [--partition FILE]
  phy2nex (-h | --help)

Arguments:
  INPUT           Input file path
  OUTPUT          Output file path [default: INPUT.nex]

Options:
  -h, --help                 Show this screen.
  -p FILE, --partition FILE  Partition file path