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bioperl-run

Wrapper modules for BioPerl

Variants:
Contains modules that provide a Perl interface to various bioinformatics applications to allow them to be used with common BioPerl objects.

Not all the wrappable applications are packaged in Debian. The ones that are are "Suggested" by this package.

Homepage:
Package version:1.6.1-1
Architecture:all
Distribution:Debian
Filename:bioperl-run_1.6.1-1_all.deb

/usr/share/doc/bioperl-run/README.Debian

bioperl-run for Debian
----------------------

(Extracted from the INSTALL file)

ENVIRONMENT VARIABLES

 Some important environment variables you need to be aware of.

 Variable               Values     Comment
 --------------------------------------------------------------------
 PHYLIPVERSION  3.5, 3.6   If you want to run Phylip3.6 you 
                           need to set this env variable 
more»

/usr/share/man/man1/bp_bioperl_application_installer.pl.1p.gz

BP_BIOPERL_APPLICUserNContributeBP_BIOPERL_APPLICATION_INSTALLER(1p)



NAME
       bioperl_application_installer - downloads and installs
       runnables

SYNOPSIS
       bioperl_application_installer

DESCRIPTION
       This script will ask the user which programs wants to install
       and where. It will download the packages, decompress them (if
       necessary) and compile/install them in 
more»

/usr/share/man/man1/bp_multi_hmmsearch.pl.1p.gz

BP_MULTI_HMMSEARCUser)Contributed Perl DocumenBP_MULTI_HMMSEARCH(1p)



NAME
       multi_hmmsearch - perform a hmmsearch into multiple FASTA
       files using
                         an INDEX file

SYNOPSIS
       multi_hmmsearch -p hmm_file [-i] -f index_file

DESCRIPTION
       Not technically a Bio::Tools::Run script as this doesn't use
       any Bioperl or Bioperl-run components but it's u
more»

/usr/share/man/man1/bp_panalysis.pl.1p.gz

BP_PANALYSIS(1p) User Contributed Perl DocumentationBP_PANALYSIS(1p)



NAME
       panalysis.PLS - 
more»

/usr/share/man/man1/bp_papplmaker.pl.1p.gz

BP_PAPPLMAKER(1p)User Contributed Perl DocumentatioBP_PAPPLMAKER(1p)



NAME
       papplmaker.PLS -
more»

/usr/share/man/man1/bp_run_neighbor.pl.1p.gz

BP_RUN_NEIGHBOR(1User Contributed Perl DocumentatBP_RUN_NEIGHBOR(1p)



NAME
       run_neighbor - r
more»

/usr/share/man/man1/bp_run_protdist.pl.1p.gz

BP_RUN_PROTDIST(1User Contributed Perl DocumentatBP_RUN_PROTDIST(1p)



NAME
       run_neighbor - r
more»

/usr/share/man/man3/Bio::Factory::EMBOSS.3pm.gz

Bio::Factory::EMBUser3Contributed Perl DocuBio::Factory::EMBOSS(3pm)



NAME
       Bio::Factory::EM
more»

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