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2
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1 # The <ideogram> block defines the position, size, labels and other
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2 # properties of the segments on which data are drawn. These segments
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3 # are usually chromosomes, but can be any integer axis.
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4
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5 <colors>
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6 <<include etc/colors.synteny.conf>>
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7 <<include etc/colors.mouse.conf>>
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8 </colors>
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9
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10 <ideogram>
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11
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12 <spacing>
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13 # Spacing between ideograms. Suffix "r" denotes a relative value. It
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14 # is relative to circle circumference (e.g. space is 0.5% of
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15 # circumference).
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16 default = 0.005r
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17 </spacing>
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18
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19 # Ideogram position, thickness and fill.
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20 #
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21 # Radial position within the image of the ideograms. This value is
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22 # usually relative ("r" suffix).
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23 radius = 0.65r
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24
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25 # Thickness of ideograms, which can be absolute (e.g. pixels, "p"
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26 # suffix) or relative ("r" suffix). When relative, it is a fraction of
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27 # image radius.
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28 thickness = 30p
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29
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30 # Ideograms can be drawn as filled, outlined, or both. When filled,
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31 # the color will be taken from the last field in the karyotype file,
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32 # or set by chromosomes_colors. Color names are discussed in
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33 #
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34 # http://www.circos.ca/documentation/tutorials/configuration/configuration_files
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35 #
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36 # When stroke_thickness=0p or if the parameter is missing, the ideogram is
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37 # has no outline and the value of stroke_color is not used.
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38
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39 fill = yes # A
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40
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41 stroke_color = dgrey # B
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42 stroke_thickness = 1p # B
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43
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44 # Minimum definition for ideogram labels.
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45
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46 show_label = yes
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47 # see etc/fonts.conf for list of font names
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48 label_font = bold
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49 label_radius = (dims(ideogram,radius_inner)+dims(ideogram,radius_outer)-conf(ideogram,label_size))/2
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50 label_with_tag = yes
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51
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52 label_size = 14
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53 label_color = white
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54 label_parallel = yes
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55
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56
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57 </ideogram>
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58
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59
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60
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61 show_ticks = yes
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62 show_tick_labels = yes
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63
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64 <ticks>
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65
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66 radius = 1r
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67 color = black
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68 thickness = 1p
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69
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70 # the tick label is derived by multiplying the tick position
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71 # by 'multiplier' and casting it in 'format':
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72 #
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73 # sprintf(format,position*multiplier)
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74
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75 multiplier = 1e-6
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76
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77 # %d - integer
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78 # %f - float
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79 # %.1f - float with one decimal
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80 # %.2f - float with two decimals
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81 #
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82 # for other formats, see http://perldoc.perl.org/functions/sprintf.html
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83
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84 format = %d
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85
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86 <tick>
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87 spacing = 0.1u
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88 size = 5p
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89 </tick>
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90
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91 <tick>
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92 spacing = 1u
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93 size = 10p
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94 show_label = yes
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95 label_size = 12p
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96 label_offset = 10p
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97 format = %d
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98 </tick>
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99
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100 </ticks>
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101
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102 #
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103 # These should be present in every Circos configuration file and
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104 # overridden as required. To see the content of these files,
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105 # look in etc/ in the Circos distribution.
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106
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107
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108
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109 # RGB/HSV color definitions, color lists, location of fonts, fill patterns.
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110 # Included from Circos distribution.
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111 <<include etc/colors_fonts_patterns.conf>>
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112
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113 # Debugging, I/O an dother system parameters
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114 # Included from Circos distribution.
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115 <<include etc/housekeeping.conf>>
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