Bio::DB::DBI - DESCRIPTION of Interface

Describe the interface here...

CJFIELDS/BioPerl-DB-1.006900 - 15 Apr 2011 19:35:57 GMT - Search in distribution

Deobfuscator - get BioPerl method and package information from a Berkeley DB

The Deobfuscator module contains functions which relate to retrieving specific types of documentation about BioPerl packages and methods. The deob_index.pl script reads through all of the BioPerl files, extracts the documentation, and stores it in tw...

CJFIELDS/BioPerl-1.007001 - 06 Nov 2016 04:02:23 GMT - Search in distribution

bioseq - FASTA sequence utility based on Bio::Perl

ROCKY/Bio-BPWrapper-1.11 - 02 Jul 2016 04:08:09 GMT - Search in distribution

RFC

JUGUANG/AutoSQL-0.2 - 25 Mar 2004 12:08:08 GMT - Search in distribution

AlignAid - easily run sequence alignments locally or on a cluster

AlignAid is designed to make it easy to run the sequence alignment programs Blast and cross_match. AlignAid can accept a large number of query sequences. If a compute cluster queue such as LSF or PBS is available, AlignAid can automatically split the...

DMESSINA/AlignAid-v0.0.2 - 16 Dec 2006 01:04:35 GMT - Search in distribution

data2bed.pl - A script to convert a data file to a bed file.

This program will convert a tab-delimited data file into a BED file, according to the specifications here <http://genome.ucsc.edu/goldenPath/help/customTrack.html#BED>. A minimum of three and a maximum of six columns may be generated. Thin and thick ...

TJPARNELL/Bio-ToolBox-1.45 - 07 Apr 2017 03:34:04 GMT - Search in distribution


bp_einfo - Query einfo to find all available databases or information about a specific database (field information or links to other NCBI databases).

Command line options: -e/--email Valid email (required by NCBI policy) -d/--db/--database NCBI database to query (default = none, which shows available databases) -f/--field print out information about a specific field code (default = none) -l/--link...

CJFIELDS/Bio-EUtilities-1.75 - 26 Sep 2016 04:08:04 GMT - Search in distribution

Boulder::Genbank - Fetch Genbank data records as parsed Boulder Stones

Boulder::Genbank provides retrieval and parsing services for NCBI Genbank-format records. It returns Genbank entries in Stone format, allowing easy access to the various fields and values. Boulder::Genbank is a descendent of Boulder::Stream, and prov...

LDS/Boulder-1.30 - 14 Dec 2002 02:06:29 GMT - Search in distribution

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 GMT - Search in distribution

Module::Build::Functions - Module::Install style syntax for Module::Build

This module gives a Module::Install-like syntax to Module::Build, using modules (other than Module::Build itself) that are in the core in 5.006. Most commands from Module::Install are supported, and most parameters to Module::Build's "new" routine ar...

NPLATONOV/Module-Build-Functions-0.04 - 20 Jan 2010 19:18:06 GMT - 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 GMT - Search in distribution

Bio::DB::HTS - Read files using HTSlib including BAM/CRAM, Tabix and BCF database files

This module provides a Perl interface to the HTSlib library for indexed and unindexed SAM/BAM sequence alignment databases. It provides support for retrieving information on individual alignments, read pairs, and alignment coverage information across...

RISHIDEV/Bio-DB-HTS-2.7 - 03 Jan 2017 13:23:46 GMT - Search in distribution

Bio::DB::Sam - Read SAM/BAM database files

This module provides a Perl interface to the libbam library for indexed and unindexed SAM/BAM sequence alignment databases. It provides support for retrieving information on individual alignments, read pairs, and alignment coverage information across...

LDS/Bio-SamTools-1.43 - 12 Feb 2016 19:33:32 GMT - Search in distribution

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 GMT - Search in distribution

Ace::Graphics::Panel - PNG graphics of Ace::Sequence::Feature objects

The Ace::Graphics::Panel class provides drawing and formatting services for Ace::Sequence::Feature objects or Das::Segment::Feature objects. Typically you will begin by creating a new Ace::Graphics::Panel object, passing it the width of the visual di...

LDS/AcePerl-1.92 - 11 Nov 2008 16:47:31 GMT - Search in distribution

GOBO::Doc::FAQ - Frequently Asked Questions

CMUNGALL/GOBO-0.03 - 17 Aug 2009 18:03:10 GMT - Search in distribution

Bio::Grep::Backend::BackendI - Superclass for all back-ends

Bio::Grep::Backend::BackendI is the superclass for all back-ends. Don't use this class directly....

LIMAONE/Bio-Grep-v0.10.6 - 12 Nov 2009 20:01:33 GMT - Search in distribution

Bio::DB::BiblioI - an interface to a Bibliographic Query Service

This interface describes the methods for accessing a bibliographic repository, for querying it and for retrieving citations from it. The retrieved citations are in XML format and can be converted to perl objects using *Bio::Biblio::IO*. The interface...

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

Bio::Community::IO - Read and write files that describe communities

A Bio::Community::IO object implement methods to read and write communities in formats used by popular programs such as BIOM, GAAS, QIIME, Unifrac, or as generic tab-separated tables. The format should be automatically detected though it can be manua...

FANGLY/Bio-Community-0.001008 - 08 Jan 2016 20:06:45 GMT - Search in distribution

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