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1 ==============================
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2 BEDTools
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3 ==============================
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4
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5 Created by Aaron Quinlan Spring 2009.
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6
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7 Copyright 2009,2010,2011 Aaron Quinlan. All rights reserved.
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8
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9 Stable releases: http://code.google.com/p/bedtools
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10
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11 Repository: https://github.com/arq5x/bedtools
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12
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13 Released under GNU public license version 2 (GPL v2).
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14
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15
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16 Summary
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17 -------
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18 BEDTools is a collection of utilities for comparing, summarizing, and
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19 intersecting genomic features in BED, GTF/GFF, VCF and BAM formats.
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20
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21
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22 Manual
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23 ------
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24 See the extensive PDF manual included at: http://code.google.com/p/bedtools/downloads/detail?name=BEDTools-User-Manual.v4.pdf.
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25
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26 This manual covers many common usage examples. There are also examples available at:
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27 http://code.google.com/p/bedtools/wiki/Usage
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28 http://code.google.com/p/bedtools/wiki/UsageAdvanced
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29
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30 Installation
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31 ------------
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32 Git
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33 ...
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34 git clone git://github.com/arq5x/bedtools.git
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35
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36 Download tarball - that big gray button on the upper right.
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37 ...........................................................
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38 #. Unpack the source downloaded tarball.
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39 #. cd into the expanded folder.
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40 #. Type "make clean" and hit enter.
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41 #. Type "make all" and hit enter.
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42 #. If you encountered no errors, then all of the BED Tools should now be in bin/
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43 If not, try to troubleshoot then email me: aaronquinlan at gmail dot com
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44 #. Copy the files in bin/ to ~/bin or if you have the privileges, to /usr/local/bin.
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45 #. Use the tools.
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46
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47
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