Funseq

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(Installation)
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=Installation=
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== Installation ==
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==A. Required Tools==
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=A. Required Tools=
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The following tools are REQUIRED for FunSeq: <br>
The following tools are REQUIRED for FunSeq: <br>
1) [http://code.google.com/p/bedtools/downloads/list Bedtools] <br>
1) [http://code.google.com/p/bedtools/downloads/list Bedtools] <br>
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4) [http://vat.gersteinlab.org/index.php VAT] - A good installation guide for VAT can be found [http://ngsda.blogspot.com/2011/06/vat.html here]. <br>
4) [http://vat.gersteinlab.org/index.php VAT] - A good installation guide for VAT can be found [http://ngsda.blogspot.com/2011/06/vat.html here]. <br>
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=B. PERL Requirement=
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==B. PERL Requirement==
1) Please make sure you have Perl 5 and up. Latest PERL can be downloaded [http://www.perl.org/ here]. <br>
1) Please make sure you have Perl 5 and up. Latest PERL can be downloaded [http://www.perl.org/ here]. <br>
2) Install package Parallel::ForkManager (this package is used for parallel running). The PERL library can be found [http://search.cpan.org/~szabgab/Parallel-ForkManager-1.03/lib/Parallel/ForkManager.pm here].
2) Install package Parallel::ForkManager (this package is used for parallel running). The PERL library can be found [http://search.cpan.org/~szabgab/Parallel-ForkManager-1.03/lib/Parallel/ForkManager.pm here].
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Revision as of 20:32, 6 May 2013

Installation

A. Required Tools

The following tools are REQUIRED for FunSeq:
1) Bedtools
2) Samtools
3) Tabix
4) VAT - A good installation guide for VAT can be found here.

B. PERL Requirement

1) Please make sure you have Perl 5 and up. Latest PERL can be downloaded here.
2) Install package Parallel::ForkManager (this package is used for parallel running). The PERL library can be found here.

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