Search results for "Bio::DB::SwissProt"
Bio::DB::SwissProt - Database object interface to SwissProt retrieval
SwissProt is a curated database of proteins managed by the Swiss Bioinformatics Institute. Additional tools for parsing and manipulating swissprot files can be found at ftp://ftp.ebi.ac.uk/pub/software/swissprot/Swissknife/. Allows the dynamic retrie...
CJFIELDS/Bio-DB-SwissProt-1.7.4 - 07 Dec 2019 22:09:00 UTC - Search in distribution
Bio::DB::Flat::BDB::swiss - swissprot adaptor for Open-bio standard BDB-indexed flat file
This module allows swissprot files to be stored in Berkeley DB flat files using the Open-Bio standard BDB-indexed flat file scheme. You should not be using this directly, but instead use it via Bio::DB::Flat....
CJFIELDS/BioPerl-1.7.8 - 03 Feb 2021 05:15:14 UTC - Search in distribution- Bio::Seq - Sequence object, with features
- Bio::PrimarySeq - Bioperl lightweight sequence object
- Bio::DB::WebDBSeqI - Object Interface to generalize Web Databases for retrieving sequences
- 3 more results from BioPerl »
GO::AppHandle - Gene Ontology Data API handle
This is a module for accessing Gene Ontology data sources, e.g the GO relational database. It defines a set of methods that provide a consistent interface independent of the way the GO data is stored. For an explanation of the GO project, please visi...
SJCARBON/go-db-perl-0.04 - 21 Dec 2009 21:56:44 UTC - Search in distribution
load_seqdatabase.pl
This script loads a BioSQL database with sequences. There are a number of options that have to do with where the database is and how it's accessed and the format and namespace of the input files. These are followed by any number of file names. The fi...
CJFIELDS/BioPerl-DB-1.006900 - 15 Apr 2011 19:35:57 UTC - Search in distribution- Bio::DB::BioSQL::BasePersistenceAdaptor - DESCRIPTION of Object
- Bio::DB::BioSQL::MultiDB
FAST::Bio::Seq - Sequence object, with features
A Seq object is a sequence with sequence features placed on it. The Seq object contains a PrimarySeq object for the actual sequence and also implements its interface. In Bioperl we have 3 main players that people are going to use frequently FAST::Bio...
DHARD/FAST-1.06 - 21 Apr 2015 08:04:25 UTC - Search in distribution- FAST::Bio::PrimarySeq - Bioperl lightweight Sequence Object
Bio::Network::ProteinNet - a representation of a protein interaction graph.
A ProteinNet is a representation of a protein interaction network. Its functionality comes from the Graph module of Perl and from BioPerl, the nodes or vertices in the network are Sequence objects. Nodes A node is one or more BioPerl sequence objects...
CJFIELDS/BioPerl-Network-1.006902 - 07 Nov 2011 16:27:40 UTC - Search in distribution
Bio::DB::GFF::Segment - Simple DNA segment object
Bio::DB::GFF::Segment provides the basic representation of a range of DNA contained in a GFF database. It is the base class from which the Bio::DB::GFF::RelSegment and Bio::DB::GFF::Feature classes are derived. Generally, you will not create or manip...
CJFIELDS/Bio-DB-GFF-1.7.4 - 08 Jan 2020 20:41:58 UTC - Search in distribution
Bio::Tools::Run::StandAloneBlast - Object for the local execution of the NCBI BLAST program suite (blastall, blastpgp, bl2seq). There is experimental support for WU-Blast and NCBI rpsblast.
This DESCRIPTION only documents Bio::Tools::Run::StandAloneBlast, a Bioperl object for running the NCBI standAlone BLAST package. Blast itself is a large & complex program - for more information regarding BLAST, please see the BLAST documentation whi...
CJFIELDS/BioPerl-Run-1.007003 - 08 Feb 2019 19:55:33 UTC - Search in distribution
Bio::Tools::Run::RemoteBlast - Object for remote execution of the NCBI Blast via HTTP
Class for remote execution of the NCBI Blast via HTTP. For a description of the many CGI parameters see: https://www.ncbi.nlm.nih.gov/BLAST/Doc/urlapi.html Various additional options and input formats are available....
CJFIELDS/Bio-Tools-Run-RemoteBlast-1.7.3 - 25 Sep 2018 04:48:13 UTC - Search in distribution
Bio::Graphics::Feature - A simple feature object for use with Bio::Graphics::Panel
This is a simple Bio::SeqFeatureI-compliant object that is compatible with Bio::Graphics::Panel. With it you can create lightweight feature objects for drawing. All methods are as described in Bio::SeqFeatureI with the following additions: The new() ...
CJFIELDS/Bio-Graphics-2.40 - 16 Dec 2016 04:50:36 UTC - Search in distribution- Bio::Graphics::FeatureFile - A set of Bio::Graphics features, stored in a file
Bio::DB::SeqFeature::Store::FeatureFileLoader - feature file loader for Bio::DB::SeqFeature::Store
The Bio::DB::SeqFeature::Store::FeatureFileLoader object parsers FeatureFile-format sequence annotation files and loads Bio::DB::SeqFeature::Store databases. For certain combinations of SeqFeature classes and SeqFeature::Store databases it features a...
CJFIELDS/Bio-DB-SeqFeature-1.7.4 - 09 Jan 2020 04:03:49 UTC - Search in distribution