Bio.Graphics package

Subpackages

• Bio.Graphics.GenomeDiagram package
  • Module contents
    • Diagram
      • Diagram.__annotate_func__
      • Diagram.__annotations_cache__
      • Diagram.__firstlineno__
      • Diagram.__getitem__()
      • Diagram.__init__()
      • Diagram.__static_attributes__
      • Diagram.__str__()
      • Diagram.add_track()
      • Diagram.del_track()
      • Diagram.draw()
      • Diagram.get_drawn_levels()
      • Diagram.get_levels()
      • Diagram.get_tracks()
      • Diagram.move_track()
      • Diagram.new_track()
      • Diagram.range()
      • Diagram.renumber_tracks()
      • Diagram.set_all_tracks()
      • Diagram.write()
      • Diagram.write_to_string()
    • Track
      • Track.__annotate_func__
      • Track.__annotations_cache__
      • Track.__firstlineno__
      • Track.__getitem__()
      • Track.__init__()
      • Track.__static_attributes__
      • Track.__str__()
      • Track.add_set()
      • Track.del_set()
      • Track.get_ids()
      • Track.get_sets()
      • Track.new_set()
      • Track.range()
      • Track.to_string()
    • FeatureSet
      • FeatureSet.__annotate_func__
      • FeatureSet.__annotations_cache__
      • FeatureSet.__firstlineno__
      • FeatureSet.__getitem__()
      • FeatureSet.__init__()
      • FeatureSet.__len__()
      • FeatureSet.__static_attributes__
      • FeatureSet.__str__()
      • FeatureSet.add_feature()
      • FeatureSet.del_feature()
      • FeatureSet.get_features()
      • FeatureSet.get_ids()
      • FeatureSet.range()
      • FeatureSet.set_all_features()
      • FeatureSet.to_string()
    • Feature
      • Feature.__annotate_func__
      • Feature.__annotations_cache__
      • Feature.__firstlineno__
      • Feature.__getattr__()
      • Feature.__init__()
      • Feature.__static_attributes__
      • Feature.get_feature()
      • Feature.set_color()
      • Feature.set_colour()
      • Feature.set_feature()
    • GraphSet
      • GraphSet.__annotate_func__
      • GraphSet.__annotations_cache__
      • GraphSet.__firstlineno__
      • GraphSet.__getitem__()
      • GraphSet.__init__()
      • GraphSet.__len__()
      • GraphSet.__static_attributes__
      • GraphSet.__str__()
      • GraphSet.data_quartiles()
      • GraphSet.del_graph()
      • GraphSet.get_graphs()
      • GraphSet.get_ids()
      • GraphSet.new_graph()
      • GraphSet.range()
      • GraphSet.to_string()
    • GraphData
      • GraphData.__annotate_func__
      • GraphData.__annotations_cache__
      • GraphData.__firstlineno__
      • GraphData.__getitem__()
      • GraphData.__init__()
      • GraphData.__len__()
      • GraphData.__static_attributes__
      • GraphData.__str__()
      • GraphData.add_point()
      • GraphData.get_data()
      • GraphData.mean()
      • GraphData.quartiles()
      • GraphData.range()
      • GraphData.set_data()
      • GraphData.stdev()
    • CrossLink
      • CrossLink.__annotate_func__
      • CrossLink.__annotations_cache__
      • CrossLink.__firstlineno__
      • CrossLink.__init__()
      • CrossLink.__static_attributes__
      • CrossLink.endA
      • CrossLink.endB
      • CrossLink.startA
      • CrossLink.startB
    • ColorTranslator
      • ColorTranslator.__annotate_func__
      • ColorTranslator.__annotations_cache__
      • ColorTranslator.__firstlineno__
      • ColorTranslator.__init__()
      • ColorTranslator.__static_attributes__
      • ColorTranslator.artemis_color()
      • ColorTranslator.float1_color()
      • ColorTranslator.get_artemis_colorscheme()
      • ColorTranslator.get_colorscheme()
      • ColorTranslator.int255_color()
      • ColorTranslator.read_colorscheme()
      • ColorTranslator.scheme_color()
      • ColorTranslator.translate()

Submodules

• Bio.Graphics.BasicChromosome module
  • Organism
    • Organism.__init__()
    • Organism.draw()
    • Organism.__annotate_func__
    • Organism.__annotations_cache__
    • Organism.__firstlineno__
    • Organism.__static_attributes__
  • Chromosome
    • Chromosome.__init__()
    • Chromosome.subcomponent_size()
    • Chromosome.draw()
    • Chromosome.__annotate_func__
    • Chromosome.__annotations_cache__
    • Chromosome.__firstlineno__
    • Chromosome.__static_attributes__
  • ChromosomeSegment
    • ChromosomeSegment.__init__()
    • ChromosomeSegment.draw()
    • ChromosomeSegment.__annotate_func__
    • ChromosomeSegment.__annotations_cache__
    • ChromosomeSegment.__firstlineno__
    • ChromosomeSegment.__static_attributes__
  • AnnotatedChromosomeSegment
    • AnnotatedChromosomeSegment.__init__()
    • AnnotatedChromosomeSegment.__annotate_func__
    • AnnotatedChromosomeSegment.__annotations_cache__
    • AnnotatedChromosomeSegment.__firstlineno__
    • AnnotatedChromosomeSegment.__static_attributes__
  • TelomereSegment
    • TelomereSegment.__init__()
    • TelomereSegment.__annotate_func__
    • TelomereSegment.__annotations_cache__
    • TelomereSegment.__firstlineno__
    • TelomereSegment.__static_attributes__
  • SpacerSegment
    • SpacerSegment.draw()
    • SpacerSegment.__annotate_func__
    • SpacerSegment.__annotations_cache__
    • SpacerSegment.__firstlineno__
    • SpacerSegment.__static_attributes__
• Bio.Graphics.ColorSpiral module
  • ColorSpiral
    • ColorSpiral.__init__()
    • ColorSpiral.get_colors()
    • ColorSpiral.a
    • ColorSpiral.b
    • ColorSpiral.__annotate_func__
    • ColorSpiral.__annotations_cache__
    • ColorSpiral.__firstlineno__
    • ColorSpiral.__static_attributes__
    • ColorSpiral.v_init
    • ColorSpiral.v_final
    • ColorSpiral.jitter
  • get_colors()
  • get_color_dict()
• Bio.Graphics.Comparative module
  • ComparativeScatterPlot
    • ComparativeScatterPlot.__init__()
    • ComparativeScatterPlot.draw_to_file()
    • ComparativeScatterPlot.__annotate_func__
    • ComparativeScatterPlot.__annotations_cache__
    • ComparativeScatterPlot.__firstlineno__
    • ComparativeScatterPlot.__static_attributes__
• Bio.Graphics.DisplayRepresentation module
  • ChromosomeCounts
    • ChromosomeCounts.__init__()
    • ChromosomeCounts.add_count()
    • ChromosomeCounts.scale_segment_value()
    • ChromosomeCounts.add_label()
    • ChromosomeCounts.set_scale()
    • ChromosomeCounts.get_segment_info()
    • ChromosomeCounts.fill_chromosome()
    • ChromosomeCounts.__annotate_func__
    • ChromosomeCounts.__annotations_cache__
    • ChromosomeCounts.__firstlineno__
    • ChromosomeCounts.__static_attributes__
• Bio.Graphics.Distribution module
  • DistributionPage
    • DistributionPage.__init__()
    • DistributionPage.draw()
    • DistributionPage.__annotate_func__
    • DistributionPage.__annotations_cache__
    • DistributionPage.__firstlineno__
    • DistributionPage.__static_attributes__
  • BarChartDistribution
    • BarChartDistribution.__init__()
    • BarChartDistribution.draw()
    • BarChartDistribution.__annotate_func__
    • BarChartDistribution.__annotations_cache__
    • BarChartDistribution.__firstlineno__
    • BarChartDistribution.__static_attributes__
  • LineDistribution
    • LineDistribution.__init__()
    • LineDistribution.draw()
    • LineDistribution.__annotate_func__
    • LineDistribution.__annotations_cache__
    • LineDistribution.__firstlineno__
    • LineDistribution.__static_attributes__
• Bio.Graphics.KGML_vis module
  • darken()
  • color_to_reportlab()
  • get_temp_imagefilename()
  • KGMLCanvas
    • KGMLCanvas.__init__()
    • KGMLCanvas.draw()
    • KGMLCanvas.__annotate_func__
    • KGMLCanvas.__annotations_cache__
    • KGMLCanvas.__firstlineno__
    • KGMLCanvas.__static_attributes__

Module contents

Bio.Graphics offers several graphical outputs, all using ReportLab.