[GENERAL] db_adaptor = Bio::DB::SeqFeature::Store db_args = -adaptor memory -dir '/data/www/gbrowse/html//databases/volvox' plugins = Aligner RestrictionAnnotator TrackDumper # list of tracks to turn on by default default features = ExampleFeatures # size of the region region segment = 10000 # examples to show in the introduction examples = ctgA # feature to show on startup initial landmark = ctgA:5000..10000 ######################## # Default glyph settings ######################## [TRACK DEFAULTS] glyph = generic height = 10 bgcolor = lightgrey fgcolor = black font2color = blue label density = 25 bump density = 100 # where to link to when user clicks in detailed view link = AUTO ################## TRACK CONFIGURATION #################### # the remainder of the sections configure individual tracks ########################################################### [ExampleFeatures] feature = remark glyph = generic stranded = 1 bgcolor = orange height = 10 key = Example Features [NameTest] feature = protein_coding_primary_transcript polypeptide glyph = generic stranded = 1 bgcolor = green height = 10 key = Name test track [Motifs] feature = polypeptide_domain glyph = span height = 5 description = 1 balloon hover =

Gene $name

balloon click =

Gene $name

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key = Example motifs [Alignments] feature = match glyph = segments category = Alignments key = Example alignments [Genes] feature = gene glyph = gene bgcolor = peachpuff label_transcripts = 1 draw_translation = 1 category = Genes key = Protein-coding genes [ReadingFrame] feature = mRNA glyph = cds ignore_empty_phase = 1 category = Genes key = Frame usage [CDS] feature = CDS:predicted mRNA:exonerate glyph = gene bgcolor = white category = Genes key = Predicted genes [Transcript] feature = mRNA:exonerate glyph = so_transcript description = 1 bgcolor = beige category = Genes key = Exonerate predictions [Clones] feature = BAC glyph = segments bgcolor = yellow connector = dashed strand_arrow = 1 description = 1 key = Fingerprinted BACs [TransChip] feature = microarray_oligo glyph = wiggle_xyplot graph_type = boxes height = 50 scale = right description = 1 category = Quantitative Data key = Transcriptional Profile [DNA] glyph = dna global feature = 1 height = 40 do_gc = 1 gc_window = auto fgcolor = red axis_color = blue strand = both key = DNA/GC Content [Translation] glyph = translation global feature = 1 height = 40 fgcolor = purple start_codons = 0 stop_codons = 1 translation = 6frame key = 6-frame translation [EST] feature = EST_match:est glyph = segments height = 6 bgcolor = orange group_pattern = /\.[53]$/ category = Genes key = ESTs