A first HeFPipe upload test
Python
Latest commit b2d707e Aug 26, 2013 @Atticus29 Added error catch and clarified the users' manual
Script now identifies the error when every sample at the locus has the
same genotype. Also clarified what type of GeneMapper format is
acceptable.
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Example_data Added GeneMapper support Aug 6, 2013
GEPhAST Added GeneMapper support Aug 6, 2013
.DS_Store Added GeneMapper support Aug 6, 2013
HefPipe.py
HefPipe_modules.py Added error catch and clarified the users' manual Aug 26, 2013
LICENSE.txt Added license Feb 5, 2013
README.txt updated tutorial video links in README and Users' manual May 19, 2013
Users' Manual.doc Added error catch and clarified the users' manual Aug 26, 2013
pyper.py
setup.py Added the main script to setup.py Apr 26, 2013

README.txt

			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: