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16 Dec 2016 04:50:36 UTC
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Bus factor: 2- 31.69% Coverage
- License: perl_5
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Changes for version 2.40
- Add CGI as a requirement as it is not part of core perl distributions, post-5.21
- Add Bio::Coordinate::Pair as a requirement (now released separately from BioPerl core)
Documentation
Render a SearchIO parser report into a simple overview graphicRender a Bio::Graphics Feature FileRender a Bio::Graphics Feature File on the webRender a SearchIO parser report into a simple overview graphicModules
Generate GD images of Bio::Seq objectsA sectioned map of configuration options (a map of maps), with a default section. Intended to augment existing tag-gtvalue semantics (ie. of Bio::AnnotationCollectionI) for object-representation information (eg. foreground color), and for general interface preferences (eg. image width in gbrowse).draw a cartoon of an Alpha-helical transmembrane protein.A simple feature object for use with Bio::Graphics::PanelCompatibility moduleA directory of feature files and conf filesA set of Bio::Graphics features, stored in a fileIterator across a Bio::Graphics::FeatureFileBase class for Bio::Graphics::Glyph objectsFactory for Bio::Graphics::Glyph objectsThe "alignment" glyphThe "allele_tower" glyphThe "anchored_arrow" glyphthe "arrow" glyphThe "box" glyphThe "broken line" glyphThe "cds" glyphThe "christmas arrow" glyphThe "crossbox" glyphThe "dashed line" glyphA GFF3-compatible gene glyph with protein decorationsdraws processed transcript with protein decorationsThe "diamond" glyphThe "dna" glyphThe "dot" glyphA glyph that draws a "dumbbell" with the same shapes on both ends.The "ellipse" glyphthe "ex", or "crossed box" glyphThe "extending arrow" glyphA base class fixed width glyphsthe "flag" glyphA GFF3-compatible gene glyphThe "generic" glyphThe "graded_segments" glyphThe "group" glyphThe "hat" glyphThe "heat_map" glyphThe "heat_map_ideogram" glyphThe "heterogeneous_segments" glyphThe "hidden" glyphAn xyplot plot drawing dual graph using data from two or more wiggle files per trackThe "ideogram" glyphA glyph that draws photographs & other imagesThe "lightning" glyphThe "line" glypha base class which suppors semantic zooming of scored alignment featuresThe "merged_alignment" glyphThe minmax glyphThe "polycistronic operon" glyphThe "oval" glyphThe "pairwise plot" glyphThe "pentagram" glyphThe "phylogenetic alignment" glyphThe "Drosophila P-element Insertion" glyphThe "STS primers" glyphThe sequence ontology transcript glyphThe "protein" glyphThe "ragged ends" glyphA GFF3-compatible gene glyphThe "redgreen_box" glyphThe "redgreen_segments" glyphA glyph that draws the same shape repeatedly.The "round rect" glyphglyph for drawing an arrow as ruler (5' and 3' are marked as label)The "saw teeth" glyphThe "scale" glyphThe "segmented_keyglyph" glyphThe "segments" glyphThe sequence ontology transcript glyphThe "span" glyphThe "spectrogram" glyphThe "splice_site" glyphThe stackedplot glyphDraw ternary plot dataThe "text in box" glyphDAS-compatible package to use for drawing a line of groups of three lettersThe "tic-tac-toe" glyphThe "too many to show" glyphA glyph that visualizes a trace fileThe "track" glyphThe "transcript" glyphThe "transcript2" glyphThe "6-frame translation" glyphThe "triangle" glyphThe "two bolts" glyphThe "vista_plot" glyphThe "wave" glyphThe "weighted arrow" glyphThe whiskerplot glyphA generic box glyph compatible with dense "wig"dataA density plot compatible with dense "wig"dataAn xyplot plot compatible with dense "wig"dataThe xyplot glyphGenerate GD images of Bio::Seq objectsgenerate SVG output of Pictogram display for consensus motifsA renderer for the Bio::Graphics class that renders Bio::SeqFeature::CollectionI objects onto Bio::Graphics::Panels using configuration information provided by a Bio::Graphics::ConfiguratorI.non-object-oriented utilities used in Bio::Graphics modulesBinary storage for dense genomic featuresProvides
in lib/Bio/Graphics/FeatureDir.pmin lib/Bio/Graphics/GDWrapper.pmin lib/Bio/Graphics/Glyph/cross.pmin lib/Bio/Graphics/Glyph/fb_shmiggle.pmin lib/Bio/Graphics/Glyph/point_glyph.pmin lib/Bio/Graphics/Glyph/read_pair.pmin lib/Bio/Graphics/Glyph/smoothing.pmin lib/Bio/Graphics/Glyph/topoview.pmin lib/Bio/Graphics/Glyph/wiggle_data.pmin lib/Bio/Graphics/Glyph/wiggle_whiskers.pmin lib/Bio/Graphics/Layout.pmin lib/Bio/Graphics/Layout.pmin lib/Bio/Graphics/Layout.pmin lib/Bio/Graphics/Wiggle/Loader.pm
Lincoln Stein
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