PYTHON   19

elegans_core.conf

Guest on 14th June 2022 01:18:11 AM

  1. [GENERAL]
  2. db_adaptor    = Bio::DB::SeqFeature::Store
  3. db_args       = -adaptor memory
  4.                 -dir     "/var/www/gbrowse2/databases/elegans_core"
  5.  
  6. plugins     = Aligner RestrictionAnnotator
  7.  
  8. # examples to show in the introduction
  9. examples = C01F4
  10.  
  11. # feature to show on startup
  12. initial landmark = C01F4
  13.  
  14. # "automatic" classes to try when an unqualified identifier is given
  15. automatic classes = gene mRNA EST_match
  16.  
  17. ########################
  18. # Default glyph settings
  19. ########################
  20.  
  21. [TRACK DEFAULTS]
  22. glyph         = generic
  23. height        = 10
  24. bgcolor       = lightgrey
  25. fgcolor       = black
  26. font2color    = blue
  27. label density = 25
  28. bump density  = 100
  29. # where to link to when user clicks in detailed view
  30. link          = AUTO
  31.  
  32. ################## TRACK CONFIGURATION ####################
  33. # the remainder of the sections configure individual tracks
  34. ###########################################################
  35.  
  36. [Genes]
  37. feature      = gene
  38. glyph        = gene
  39. height       = 8
  40. bgcolor      = blue
  41. description  = 1
  42. key          = Protein-coding genes
  43.  
  44. [Alignments]
  45. feature      = EST_match:BLAT_EST_BEST
  46. glyph        = segments
  47. height        = 7
  48. draw_target   = 1
  49. show_mismatch = 1
  50. bgcolor      = sub {
  51.                 my $feature = shift;
  52.                 my $name    = $feature->display_name;
  53.                 if ($name =~ /\.5$/) {
  54.                    return 'red';
  55.                 } else {
  56.                    return 'orange';
  57.                 }
  58.         }
  59. canonical_strand = 1
  60. group_pattern = /\.[53]$/
  61. key          = ESTs
  62.  
  63. [DNA]
  64. glyph          = dna
  65. global feature = 1
  66. height         = 40
  67. do_gc          = 1
  68. gc_window      = auto
  69. fgcolor        = red
  70. axis_color     = blue
  71. strand         = both
  72. key            = DNA/GC Content

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