Search results for "Bio::Graphics::Panel"
Bio::Graphics::Panel - Generate GD images of Bio::Seq objects
The Bio::Graphics::Panel class provides drawing and formatting services for any object that implements the Bio::SeqFeatureI interface, including Ace::Sequence::Feature and Das::Segment::Feature objects. It can be used to draw sequence annotations, ph...
CJFIELDS/Bio-Graphics-2.40 - 16 Dec 2016 04:50:36 UTC - Search in distribution- Bio::Graphics::Feature - A simple feature object for use with Bio::Graphics::Panel
- Bio::Graphics::Glyph - Base class for Bio::Graphics::Glyph objects
- Bio::Graphics - Generate GD images of Bio::Seq objects
- 90 more results from Bio-Graphics »
PrimerMap - generates a primer sequence graphical map
This object extends the Bio::SeqFeature::Generic class to provide an object for Bio::Graphics. Uses primer starting and ending coordinates (base pairs) to generate a primer map relative to a base sequence....
HALLORAN/PrimerMap-1.3 - 06 Dec 2016 15:41:59 UTC - Search in distribution
Devel::Monitor - Monitor your variables/objects for memory leaks
You have memory leaks, and you want to remove it... You can use this tool to help you find which variables/objects that are not destroyed when they should be, and thereafter, you can visualise exactly where is the circular reference for some specific...
PHCOTE/Devel-Monitor-0.9.0.7 - 21 Apr 2005 01:12:30 UTC - Search in distribution
axt2phy.pl - convert AXT pairwise alignment files to GFF, Fasta and wig files
This program reads an AXT pairwise alignment file and creates the GFF, Fasta and binary wig files to be used for the phylogenetic glyph for the Generic Genome Browser. AXT alignment files are used by UCSC Genome Broser. A description of the AXT files...
LDS/GBrowse-2.56 - 15 Jan 2017 21:29:11 UTC - Search in distribution- pod::CONFIGURE_HOWTO
- Bio::Graphics::Browser::Plugin - Base class for gbrowse plugins.
- Bio::Graphics::Browser2::Plugin - Base class for gbrowse plugins.
- 8 more results from GBrowse »
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
lib/Bio/DB/BigWig.pm
This module provides a high-level interface to Jim Kent's BigWig 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::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::SeqFeature::Lite - Lightweight Bio::SeqFeatureI class
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/BioPerl-1.7.8 - 03 Feb 2021 05:15:14 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
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- Bio::Graphics::Glyph::decorated_gene - A GFF3-compatible gene glyph with protein decorations