Bio::Graphics::Glyph::cds - The "cds" glyph

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This glyph draws features that are associated with a protein coding region. At high magnifications, draws a series of boxes that are color-coded to indicate the frame in which the translation occurs. At low magnifications, draws the amino acid sequen...

CJFIELDS/Bio-Graphics-2.40 - 16 Dec 2016 04:50:36 UTC - Search in distribution

• Bio::Graphics::Glyph - Base class for Bio::Graphics::Glyph objects
• Bio::Graphics::Glyph::span - The "span" glyph
• Bio::Graphics::Glyph::flag - the "flag" glyph
• 67 more results from Bio-Graphics »

Bio::DB::Das::Chado - DAS-style access to a chado database

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Bio::DB::Das::Chado allows DAS style access to a Chado database, getting SeqFeatureI-compliant BioPerl objects and allowing GBrowse to access a Chado database directly....

SCAIN/Bio-DB-Das-Chado-0.35a - 07 Apr 2015 23:02:17 UTC - Search in distribution

pod::CONFIGURE_HOWTO

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LDS/GBrowse-2.56 - 15 Jan 2017 21:29:11 UTC - Search in distribution

• Bio::Graphics::Browser2::Markup - Markup routines for sequences in text form

lib/Bio/DB/BigBed.pm

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This module provides a high-level interface to Jim Kent's BigBed files, a type of indexed genome feature database that can be randomly accessed across the network. Please see http://genome.ucsc.edu/FAQ/FAQformat.html for information about creating th...

LDS/Bio-BigFile-1.07 - 24 Feb 2012 17:20:46 UTC - Search in distribution

Bio::Draw::FeatureStack - BioPerl module to generate GD images of stacked gene models

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FeatureStack creates GD images of vertically stacked gene models to facilitate visual comparison of gene structures. Compared genes can be clusters of orthologous genes, gene family members, or any other genes of interest. FeatureStack takes an array...

CHRISFR/Bio-Draw-FeatureStack-0.03 - 29 Jun 2012 21:09:13 UTC - Search in distribution

Bio::DB::GFF::Aggregator::orf - An aggregator for orf regions

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Bio::DB::GFF::Aggregator::orf was written to work with the "cds" glyph. GFF files. It aggregates raw "ORF" features into "coding" features. This is basically identical to the "coding" aggregator, except that it looks for features of type "ORF" rather...

CJFIELDS/Bio-DB-GFF-1.7.4 - 08 Jan 2020 20:41:58 UTC - Search in distribution

Bio::Graphics::Glyph::decorated_transcript - draws processed transcript with protein decorations

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This glyph extends the functionality of the Bio::Graphics::Glyph::processed_transcript glyph and allows protein decorations (e.g., signal peptides, transmembrane domains, protein domains) to be drawn on top of gene models. Currently, the glyph can dr...

CHRISFR/Bio-Graphics-Glyph-decorated_gene-0.03 - 29 Jun 2012 21:12:12 UTC - Search in distribution

Bio::DB::SeqFeature::Store::FeatureFileLoader - feature file loader for Bio::DB::SeqFeature::Store

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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