This is the Linux app named Pysimony to run in Linux online whose latest release can be downloaded as Pysimony.py. It can be run online in the free hosting provider OnWorks for workstations.
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Pysimony to run in Linux online
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DESCRIPTION
UPDATE: After some bug fixes, I've ditched Pysimony for Javamony: https://sourceforge.net/projects/javamony/Given Python's beauty, I know that someday I will have to finish Pysimony.
A student's first attempt at a phylogenetic inference program, written in the simplistic yet elegant Python.
Pysimony reads a FASTA file (only ATGC accepted) specified as its only argument. Basic testing has shown that it is slow, inaccurate and most definitely inefficient. An unlikely-to-be-the-most-parsimonious tree is printed upon completion in basic Newick tree format.
As all parts of the program are the original work of a beginner programmer, this may represent one of the worst approaches to solving the phylogenetic problem. I have clearly avoided object-oriented programming.
Nevertheless, I distribute this imagining it might someday be slightly educational or at least provide a laugh at the pathetic attempt it makes to reinvent the wheel
Features
- Flawed parsimony calculator
- Reads FASTA files (only ATGC)
- Outputs tree in Newick format
- Simple, single mode
Audience
Science/Research, Education
User interface
Command-line
Programming Language
Python
This is an application that can also be fetched from https://sourceforge.net/projects/pysimony/. It has been hosted in OnWorks in order to be run online in an easiest way from one of our free Operative Systems.
