GitHub - Atticus29/HefPipe: Published in Molecular Ecology Resources [Python, R, Command Line] A software analysis pipeline for heterozygosity-fitness correlations

Atticus29 / HefPipe Public

Notifications You must be signed in to change notification settings
Fork 2
Star 0

Published in Molecular Ecology Resources [Python, R, Command Line] A software analysis pipeline for heterozygosity-fitness correlations

MIT license

0 stars 2 forks Branches Tags Activity

Star

Notifications

Branches Tags

Name		Name	Last commit message	Last commit date
Latest commit History 40 Commits
Example_data		Example_data
GEPhAST		GEPhAST
.DS_Store		.DS_Store
HeFPipe_a_complete_analytical_pipeline_f.pdf		HeFPipe_a_complete_analytical_pipeline_f.pdf
HefPipe.py		HefPipe.py
HefPipe_modules.py		HefPipe_modules.py
LICENSE.txt		LICENSE.txt
README.txt		README.txt
Users' Manual.doc		Users' Manual.doc
pyper.py		pyper.py
setup.py		setup.py

Repository files navigation

			HeFPipe
Full video tutorial available at: http://www.youtube.com/watch?v=cKhKmeqjG6I&feature=share&list=PLv-e9CNPZr-o34dIwUKi-Eew-t6A643tX

Please refer to https://github.com/Atticus29/HefPipe_repos for bug fixes.

Requirements:
	Python v.2.7.3 or later.
	R v.2.15.1 or later.

Package Dependencies:
	Python: pypeR, os, re, copy, csv, pickle, math, collections, itertools
	R: reshape, rhh, ggplot2, pgirmess, lattice, MASS, PerformanceAnalytics

For installation:
	# python setup.py install

To upgrade to the newest version:
	# python setup.py install

Known issues:

For Help:
	Please see the users' manual (https://github.com/Atticus29/HefPipe_repos)

For example:
	The script "HeFPipe.py" covers all the typical uses of HeFPipe when run with the example data 	found in "Example_data/1_Before_the_pipeline_is_run/".

Citation:
	Fisher, M.A. 2013 "HeFPipe: An analytical pipeline for heterozygosity-fitness correlations". 
	Please see the users' manual (https://github.com/Atticus29/HefPipe_repos)


FAQs: