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PVAAS-0.1.5.tar.gz 2014-08-26 862.7 kB
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PVAAS-0.1.4.tar.gz 2014-08-19 861.8 kB
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README.txt 2014-07-29 1.0 kB
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Totals: 3 Items   1.7 MB 0 
Install PVAAS

1) Prerequisites:
 * gcc
 * python2.7
 * numpy and scipy
 * cython
 * Xcode (MacOS only)

2) Download source code from:
 * http://sourceforge.net/projects/pvaas/files

3) Install:
 * tar zxf PVAAS-VERSION.tar.gz
 * cd PVAAS-VERSION
 * python setup.py install
 or 
 * python setup.py install --root=/some/where
 * export PYTHONPATH=/some/where/lib/python2.7/site-packages


Test PVAAS

1) Download test files:
 * hg19.fa.gz
   https://drive.google.com/file/d/0BwAUopGWU_kheHRXTl8wRnZTUnc/edit?usp=sharing

 * hg19.All.bed12.gz
   https://drive.google.com/file/d/0BwAUopGWU_khV2dKcTEza280ajg/edit?usp=sharing

 * chr9.sorted.bam
   https://drive.google.com/file/d/0BwAUopGWU_khQzc3QnlId002dHM/edit?usp=sharing

 * chr9.sorted.bam.bai
   https://drive.google.com/file/d/0BwAUopGWU_khdWJHUlJCNDZjazg/edit?usp=sharing

2) Run: python2.7 pvaas.py  -i chr9.sorted.bam -r hg19.fa.gz -g hg19.All.bed12.gz  -o output


Online Manual:
 * http://pvaas.sourceforge.net/

Contact:
wangliguo78@gmail.com
Source: README.txt, updated 2014-07-29