Bio::Glite - G-language Genome Analysis Environment REST service interface module River stage zero No dependents

The G-language GAE fully supports most sequence databases. Stored annotation information: LOCUS $gb->{LOCUS}->{id} -accession number $gb->{LOCUS}->{length} -length of sequence $gb->{LOCUS}->{nucleotide} -type of sequence ex. DNA, RNA $gb->{LOCUS}->{c...

GAOU/Bio-Glite-0.10 - 30 Mar 2009 14:38:31 UTC - Search in distribution


Bio::NEXUS River stage one • 1 direct dependent • 1 total dependent

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

Bio::Phylo - Phylogenetic analysis using perl River stage two • 9 direct dependents • 16 total dependents

This is the base class for the Bio::Phylo package for phylogenetic analysis using object-oriented perl5. In this file, methods are defined that are performed by other objects in the Bio::Phylo release that inherit from this base class (which you norm...

RVOSA/Bio-Phylo-v2.0.1 - 30 Oct 2017 19:50:35 UTC - Search in distribution

Bio::Roary - Create a pan genome River stage zero No dependents

AJPAGE/Bio-Roary-3.13.0 - 06 Nov 2019 21:32:21 UTC - Search in distribution

Bio::Water River stage zero No dependents

To calculate the distances between water oxygen atoms and protein atoms. EXPORT @array=Water->wbridge("<path>/pdb1une.ent",2.25,3.6); foreach(@array){ print $_; } or foreach(Water->wbridge("<path>/pdb1une.ent",2.25,3.6)){ print $_; } This will give t...

SARAVANAN/Bio-Water-0.0.1 - 24 Feb 2013 02:27:57 UTC - Search in distribution

Bio::Biblio - a bibliographic query service module River stage zero No dependents

This is a class whose instances can access bibliographic repositories. It allows one to query a bibliographic database (such as MEDLINE) and then to retrieve resulting citations from it. The citations are returned in an XML format which is native to ...

CDRAUG/Bio-Biblio-1.70 - 24 Mar 2013 00:19:52 UTC - Search in distribution

Bio::BioVeL - BioVeL web services for phyloinformatics River stage zero No dependents

RVOSA/Bio-BioVeL-0.1 - 21 Mar 2014 10:32:41 UTC - Search in distribution

Bio::CIPRES - interface to the CIPRES REST API River stage zero No dependents

"Bio::CIPRES" is an interface to the CIPRES REST API for running phylogenetic analyses. Currently it provides general classes and methods for job submission and handling - determination of the correct parameters to submit is up to the user (check "SE...

VOLKENING/Bio-CIPRES-0.005 - 21 Jan 2019 05:04:30 UTC - Search in distribution

Bio::Emboss - Write EMBOSS programs in Perl River stage zero No dependents

This module allows Perl programmers to access functions of the EMBOSS (European Molecular Biology Open Software Suite) package....

PERNST/Bio-Emboss-5.0.0.1 - 06 Sep 2007 16:28:46 UTC - Search in distribution

Bio::FdrFet - Perl extension for False Discovery Rate and Fisher Exact Test applied to pathway analysis. River stage zero No dependents

Bio::FdrFet implements the False Discovery Rate Fisher Exact Test of gene expression analysis applied to pathways described in the paper by Ruiru Ji, Karl-Heinz Ott, Roumyana Yordanova, and Robert E Bruccoleri. A copy of the paper is included with th...

BRUC/Bio-FdrFet-0.05 - 03 Jan 2015 19:55:10 UTC - Search in distribution

Bio::Regexp - Exhaustive DNA/RNA/protein regexp searches River stage zero No dependents

This module is for searching inside DNA or RNA or protein sequences. The sequence to be found is specified by a restricted version of regular expressions. The restrictions allow us to manipulate the regexp in various ways described below. As well as ...

FRACTAL/Bio-Regexp-0.101 - 26 Jan 2014 18:11:26 UTC - Search in distribution

Bio::Sketch River stage one • 1 direct dependent • 2 total dependents

LSKATZ/Bio-Sketch-0.3 - 12 Mar 2019 17:48:16 UTC - Search in distribution

Bio::Tradis - Bio-Tradis contains a set of tools to analyse the output from TraDIS analyses. For more information on the TraDIS method, see http://genome.cshlp.org/content/19/12/2308 River stage zero No dependents

AJPAGE/Bio-Tradis-1.4.5 - 04 Dec 2019 14:41:26 UTC - Search in distribution

Bio::Polloc - Perl library for Polymorphic Locy analyses River stage zero No dependents

LRR/Polloc-1.5.3b - 29 Jun 2011 02:32:21 UTC - Search in distribution

Bio::Cluster - BioPerl cluster modules River stage two • 1 direct dependent • 14 total dependents

Classes and modules here describe the basic structure for a cluster of bioperl objects. For a more complete explanation, please see the interface module Bio::ClusterI or the Bio::ClusterI-based implementations for specific examples....

CJFIELDS/Bio-Cluster-1.7.3 - 01 Oct 2018 04:35:53 UTC - Search in distribution

Bio::MAGETAB - A data model and utility API for the MAGE-TAB format. River stage zero No dependents

The Bio::MAGETAB module provides the core set of classes used to support the perl MAGE-TAB API. This module provides a set of data structures and type constraints which help to reliably handle data in MAGE-TAB format. See the Reader, Writer and Graph...

TFRAYNER/Bio-MAGETAB-1.31 - 11 Apr 2014 15:00:10 UTC - Search in distribution

Bio::Medpost - Part of speech tagger for MEDLINE text River stage one • 1 direct dependent • 1 total dependent

XERN/Bio-Medpost-0.04 - 03 Jul 2005 17:44:22 UTC - Search in distribution

Bio::NexmlIO - stream handler for NeXML documents River stage zero No dependents

Bio::NexmlIO is an I/O handler for a NeXML document. A NeXML document can represent three different data types: simple sequences, alignments, and trees. NexmlIO has four main methods next_tree, next_seq, next_aln, and write. NexmlIO returns bioperl s...

CJFIELDS/Bio-NeXMLIO-1.7.3 - 11 Sep 2018 18:47:25 UTC - Search in distribution

Bio::SSRTool - The great new Bio::SSRTool! River stage zero No dependents

KCLARK/Bio-SSRTool-0.04 - 03 Oct 2012 21:48:12 UTC - Search in distribution

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