Phage_Finder

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Requirements

SYSTEM REQUIREMENTS
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The programs should run on all Unix platforms. It has been tested on Linux (Redhat, Suse and Debian) and Mac OS X 10.3/10.4 operating systems. It has not been tested on all Unix platforms.

SOFTWARE REQUIREMENTS/DEPENDENCIES
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Phage_Finder.pl requires the following programs or packages for full functionality:

PERL version 5.8.5 or later

NCBI BLASTALL version 2.2.10 or later

Linux
Mac OS X (Apple/Genentech optimized NCBI BLAST)

WUBLAST 2.0

HMMSEARCH

tRNAscan-SE

Aragorn version 1.1.6

FASTA33, MUMMER (if you want to use these to find attachment sites)

Math::Round PERL module [INCLUDED in this distribution]

PHAGE::Phage_subs PERL module [INCLUDED in this distribution]

Getopt::Std [should be installed with PERL]

XGRAPH


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