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pplacer-software

pplacer

Pplacer places query sequences on a fixed reference phylogenetic tree to maximize phylogenetic likelihood or posterior probability according to a reference alignment. Pplacer is designed to be fast, to give useful information about uncertainty, and to offer advanced visualization and downstream analysis.

Information

Usage

See which versions of pplacer are available:

$ module avail pplacer

Load one version into your environment and run it:

$ module load pplacer/1.1.alpha19
$ pplacer
$ guppy
$ rppr

Installation

Notes from the sysadmin during installation:

$ cd /tmp
$ wget https://github.com/matsen/pplacer/releases/download/v1.1.alpha19/pplacer-linux-v1.1.alpha19.zip
$ unzip pplacer-linux-v1.1.alpha19.zip
$ sudo mkdir -p /export/apps/pplacer
$ sudo cp -r pplacer-Linux-v1.1.alpha19 /export/apps/pplacer/1.1.alpha19
pplacer-software.txt · Last modified: 2020/03/12 17:57 by aorth