Funseq
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== Installation == | == Installation == | ||
| + | =A. Required Tools= | ||
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> | ||
2) [http://sourceforge.net/projects/samtools/files/ Samtools] <br> | 2) [http://sourceforge.net/projects/samtools/files/ Samtools] <br> | ||
3) [http://sourceforge.net/projects/samtools/files/tabix/ Tabix] <br> | 3) [http://sourceforge.net/projects/samtools/files/tabix/ Tabix] <br> | ||
| - | 4) [http://vat.gersteinlab.org/index.php VAT] - A good installation guide 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> |
| + | |||
| + | =B. PERL Requirement= | ||
| + | 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]. | ||
| + | <br> | ||
| + | <br> | ||
Revision as of 20:31, 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.
