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S. Hutchins edited this page May 18, 2017 · 19 revisions

Datasnakes-Orthologs

This package is a collection of the scripts related to an Orthologs Project.

Description

The subdirectories here are used as modules in the Python3 package that we are developing.

Installation

Soon we'll be able to pip install datasnakes-orthologs via a command line.

In development but working. To test you'll want to create a virtual environment so that cleanup is easy. Using virtualenv with python3 insures that python invokes py3.5 and python3 invokes py36. Invoke python36.

$ mkdir dev
$ cd dev
$ virtualenv PackageTest --python=python3
$ source activate PackageTest
$ cd PackageTest
$ pip install cookiecutter
$ git clone -b RAG-Review http;//github.com/datasnakes/Datasnakes-Scripts
$ cd Datasnakes-Scripts
$ python3 tester.py

Usage

After installation, you'll be able to easily import each module via:

from Orthologs import Align, BioSQL, Blast, CompGenetics, Phylogenetics, Genbank

Contributors

Citation

We're so thankful to have a resource such as Biopython. They inspired this package.

Cock, P.J.A. et al. Biopython: freely available Python tools for computational molecular biology and bioinformatics. Bioinformatics 2009 Jun 1; 25(11) 1422-3 http://dx.doi.org/10.1093/bioinformatics/btp163 pmid:19304878

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