SNP map [SVG]

To get an idea of what a command file should look like check out the example file. In brief:

• The commands for each locus in the command file are surrounded by

  << ... >>

• Everything on a line following # is a comment
• Recognized commands (commands are lower case, upper case is user input):

  • locus NAME

    Name of the locus (used as label in map)

  • length NUMBER_OF_BP

  Length of the locus

  • exon START END

    Position of exons (repeated for each exon)

  • cds START END

    Position of coding sequences

  • snp POS MARKER COLOR

    MARKER can be "dot", "square", "pos", or a custom string. If a custom string is given, snp will be labeled with that string. COLOR can be any SVG color (e.g. black, white, red, green, blue, lightgray, lime, ...)

  • scale

    Optional. If this command is present, a scale bar will be drawn.

  • title

    Optional. If this command is present, the locus title will be drawn

  • cds_color COLOR

    Optional. Color used to draw coding sequence

  • start_pos POSITION

    Optional. Position number of the first base (i.e. all following positions are relative to this number).