Search results for "Bio::Graphics::Feature"
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::FeatureDir - A directory of feature files and conf files
- Bio::Graphics::FeatureBase - Compatibility module
- Bio::Graphics::FeatureFile - A set of Bio::Graphics features, stored in a file
- 55 more results from Bio-Graphics »
Bio::DOOP::Graphics::Feature - Graphical representation of the features
This object represents a picture that contains all the sequences and sequence features of a subset. The module is fast enough to use it in your CGI scripts. You can also use it to visualize the subset....
RAZZOR/Bio-DOOP-DOOP-1.04 - 17 Aug 2009 12:59:38 UTC - Search in distribution- Bio::DOOP::DOOP - DOOP API main module
Bio::Graphics::Browser2::AuthorizedFeatureFile - Add HTTP authorization features to FeatureFile
GBrowse internal module. METHODS POD ERRORS Hey! The above document had some coding errors, which are explained below: Around line 7: =over is the last thing in the document?!...
LDS/GBrowse-2.56 - 15 Jan 2017 21:29:11 UTC - 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 UTC - Search in distribution- Ace::Graphics::Track - PNG graphics of Ace::Sequence::Feature objects
- Ace::Graphics::Glyph::segments - The "discontinuous segments" glyph
GD::SVG - Seamlessly enable SVG output from scripts written using GD
GD::SVG painlessly enables scripts that utilize GD to export scalable vector graphics (SVG). It accomplishes this task by wrapping SVG.pm with GD-styled method calls. To enable this functionality, one need only change the "use GD" call to "use GD::SV...
TWH/GD-SVG-0.33 - 10 May 2009 14:39:31 UTC - Search in distributionMCE::Shared - MCE extension for sharing data supporting threads and processes
This module provides data sharing capabilities for MCE supporting threads and processes. MCE::Hobo provides threads-like parallelization for running code asynchronously....
MARIOROY/MCE-Shared-1.886 - 13 Sep 2023 23:57:14 UTC - Search in distribution
Bio::DB::SeqFeature - Normalized feature for use with Bio::DB::SeqFeature::Store
The Bio::DB::SeqFeature object is the default SeqFeature class stored in Bio::DB::SeqFeature databases. It implements both the Bio::DB::SeqFeature::NormalizedFeatureI and Bio::DB::SeqFeature::NormalizedTableFeatureI interfaces, which means that its s...
CJFIELDS/Bio-DB-SeqFeature-1.7.4 - 09 Jan 2020 04:03:49 UTC - Search in distribution- Bio::DB::SeqFeature::Store - Storage and retrieval of sequence annotation data
- Bio::DB::SeqFeature::NormalizedFeature - Normalized feature for use with Bio::DB::SeqFeature::Store
- Bio::DB::SeqFeature::Store::FeatureFileLoader - feature file loader for Bio::DB::SeqFeature::Store
get_datasets.pl - A program to collect data for a list of features
This program will collect dataset values from a variety of sources, including features in a BioPerl Bio::DB::SeqFeature::Store database, binary wig files .wib loaded in a database using Bio::Graphics::Wiggle, bigWig files, bigBed files, Bam alignment...
TJPARNELL/Bio-ToolBox-1.691 - 13 Oct 2022 18:07:52 UTC - Search in distribution- Bio::ToolBox::db_helper - helper interface to various database formats
- Bio::ToolBox::SeqFeature - Fast, simple SeqFeature implementation
- Bio::ToolBox::db_helper::wiggle
Bio::DB::GFF - Storage and retrieval of sequence annotation data
Bio::DB::GFF provides fast indexed access to a sequence annotation database. It supports multiple database types (ACeDB, relational), and multiple schemas through a system of adaptors and aggregators. The following operations are supported by this mo...
CJFIELDS/Bio-DB-GFF-1.7.4 - 08 Jan 2020 20:41:58 UTC - Search in distribution
FAST::Bio::UnivAln - Bioperl alignment object
This module is the FAST::Bio::UnivAln alignment object which is part of the Bioperl project. Currently it has some nice methods for accessing an alignment after reading it in from certain formats, incl. utilities like consensus and reverse complement...
DHARD/FAST-1.06 - 21 Apr 2015 08:04:25 UTC - Search in distribution
Bio::DB::USeq - Read USeq archive database files
Bio::DB::USeq is a BioPerl style adaptor for reading USeq files. USeq files are compressed, indexed data files supporting modern bioinformatic datasets, including genomic points, scores, and intervals. More information about the USeq software package...
TJPARNELL/Bio-DB-USeq-0.26 - 24 Sep 2022 02:31:45 UTC - Search in distribution
Bio::DB::BigFile - Low-level interface to BigWig & BigBed files
This module provides a low-level interface to Jim Kent's BigWig and BigBed files, which are indexed genome feature databases that can be randomly accessed across the network. Please see http://genome.ucsc.edu/FAQ/FAQformat.html for information about ...
LDS/Bio-BigFile-1.07 - 24 Feb 2012 17:20:46 UTC - Search in distribution
Bio::DB::Das::Chado - DAS-style access to a chado database
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
Bio::DB::HTS::Alignment - The HTS alignment object
The Bio::DB::HTS::Alignment and Bio::DB::HTS::AlignWrapper classes together represent an alignment between a sequence read (the "query") and a reference sequence (the "target"). Bio::DB::HTS::Alignment adheres strictly to the C-level BAM library's de...
AVULLO/Bio-DB-HTS-3.01 - 23 Apr 2019 13:51:11 UTC - Search in distribution
Bio::DB::Bam::Alignment - The SAM/BAM alignment object
The Bio::DB::Bam::Alignment and Bio::DB::Bam::AlignWrapper classes together represent an alignment between a sequence read (the "query") and a reference sequence (the "target"). Bio::DB::Bam::Alignment adheres strictly to the C-level BAM library's de...
LDS/Bio-SamTools-1.43 - 12 Feb 2016 19:33:32 UTC - Search in distribution
Bio::Das::SegmentI - DAS-style access to a feature database
Bio::Das::SegmentI is a simplified alternative interface to sequence annotation databases used by the distributed annotation system. In this scheme, the genome is represented as a series of landmarks. Each Bio::Das::SegmentI object ("segment") corres...
CJFIELDS/BioPerl-1.7.8 - 03 Feb 2021 05:15:14 UTC - Search in distribution- Bio::SeqFeature::Lite - Lightweight Bio::SeqFeatureI class
Bio::Das::Stylesheet - Access to DAS stylesheets
The Bio::Das::Stylesheet class contains information about a remote DAS server's preferred visualization style for sequence features. Each server has zero or one stylesheets for each of the data sources it is responsible for. Stylesheets can provide s...
LDS/Bio-Das-1.17 - 29 Jun 2010 19:43:55 UTC - Search in distribution
Bio::Draw::FeatureStack - BioPerl module to generate GD images of stacked gene models
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
AI::TensorFlow::Libtensorflow::Manual::Notebook::InferenceUsingTFHubEnformerGeneExprPredModel - Using TensorFlow to do gene expression prediction using a pre-trained model
ZMUGHAL/AI-TensorFlow-Libtensorflow-0.0.7
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05 Oct 2023 05:37:08 UTC
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Bio::Graphics::Glyph::decorated_transcript - draws processed transcript with protein decorations
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