Search results for "Bio::Tools::Run::Application"
Bio::Tools::Run::EMBOSSApplication - class for EMBOSS Applications
The EMBOSSApplication class can represent any EMBOSS program. It is created by a Bio::Factory::EMBOSS object. If you want to check command line options before sending them to the program set $prog->verbose to positive integer. The ADC description of ...
CJFIELDS/BioPerl-Run-1.007003 - 08 Feb 2019 19:55:33 UTC - Search in distribution- Bio::Tools::Run::Alignment::DBA - Object for the alignment of two sequences using the DNA Block Aligner program.
- Bio::Tools::Run::Phylo::Phyml - Wrapper for rapid reconstruction of phylogenies using Phyml
- Bio::Tools::Run::Phylo::Raxml
- 16 more results from BioPerl-Run »
cipresrun - command line interface to the CIPRES analysis portal
RVOSA/Bio-Phylo-CIPRES-v0.2.1
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17 Apr 2020 22:55:30 UTC
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FortyTwo::Manual - User Guide for Forty-Two
DBAURAIN/Bio-MUST-Apps-FortyTwo-0.213470
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13 Dec 2021 23:13:33 UTC
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Bio::NEXUS
This User Manual explains the motivation for developing the Bio::NEXUS library, the principles underlying its organization, and its use in developing software for evolutionary informatics. This manual also provides information on how to use two demon...
ARLIN/Bio-NEXUS-0.78 - 10 Feb 2012 13:31:13 UTC - Search in distribution
Alien::SeqAlignment::cutadapt - Find or install cutadapt
This distribution provides the python tool cutadapt so that it can be used by other Perl distributions that are on CPAN. It does this by first trying to detect an existing install of cutadapt on your system. If found it will use that. If it cannot be...
CHRISARG/Alien-SeqAlignment-cutadapt-0.05 - 24 Mar 2024 04:07:54 UTC - Search in distribution
Bio::Tools::Run::Alignment::TCoffee - Object for the calculation of a multiple sequence alignment from a set of unaligned sequences or alignments using the TCoffee program
Note: this DESCRIPTION only documents the (Bio)perl interface to TCoffee. Helping the module find your executable You will need to enable TCoffee to find the t_coffee program. This can be done in (at least) three ways: 1. Make sure the t_coffee execu...
CDRAUG/Bio-Tools-Run-Alignment-TCoffee-1.7.4 - 09 Jul 2018 18:31:30 UTC - Search in distribution
Bio::Tools::Run::WrapperBase - Extensions to WrapperBase for handling programs with commands *ALPHA*
This is a developer-focused experimental module. The main idea is to extend Bio::Tools::Run::WrapperBase to make it relatively easy to create run wrappers around *suites* of related programs, like "samtools" or "blast+". Some definitions: * program T...
CJFIELDS/BioPerl-1.7.8 - 03 Feb 2021 05:15:14 UTC - Search in distribution
Bio::Tools::Run::Alignment::Clustalw - Object for the calculation of a multiple sequence alignment from a set of unaligned sequences or alignments using the Clustalw program
Note: this DESCRIPTION only documents the Bioperl interface to Clustalw. Clustalw, itself, is a large & complex program - for more information regarding clustalw, please see the clustalw documentation which accompanies the clustalw distribution. Clus...
CDRAUG/Bio-Tools-Run-Alignment-Clustalw-1.7.4 - 11 Jul 2018 14:57:04 UTC - Search in distribution
Bio::Tools::Run::QCons - Run Qcons to analyze protein-protein contacts
This module implements a wrapper for the QCons application. QCons itself is an implementation of the Polyhedra algorithm for the prediction of protein-protein contacts. From the program's web page (<http://tsailab.tamu.edu/QCons/>): "QContacts allows...
BRUNOV/Bio-Tools-Run-Qcons-0.112881 - 15 Oct 2011 21:39:17 UTC - Search in distribution
Alien::SeqAlignment::last - find, build and install the last tools
This distribution provides last so that it can be used by other Perl distributions that are on CPAN. The source code will be downloaded from the last Gitlab repo, and if that fails it will use the location of a fork by the author of this Perl module....
CHRISARG/Alien-SeqAlignment-last-0.02 - 24 Mar 2024 03:31:46 UTC - Search in distribution