|
0
|
1 <macros>
|
|
|
2 <xml name="configfile_circos_conf">
|
|
|
3 <configfile name="circos_conf"><![CDATA[
|
|
|
4 <<include colors_fonts_patterns.conf>>
|
|
|
5 <<include housekeeping.conf>>
|
|
|
6
|
|
|
7 <colors>
|
|
|
8 <<include etc/colors.conf>>
|
|
|
9 </colors>
|
|
|
10
|
|
|
11 <fonts>
|
|
|
12 <<include etc/fonts.conf>>
|
|
|
13 </fonts>
|
|
|
14
|
|
|
15 karyotype = karyotype.txt
|
|
|
16
|
|
|
17 <image>
|
|
|
18 dir = .
|
|
|
19 svg = yes
|
|
|
20 file = circos.svg
|
|
|
21 # radius of inscribed circle in image
|
|
|
22 radius = 2000p
|
|
|
23 background = white
|
|
|
24 # by default angle=0 is at 3 o'clock position
|
|
|
25 angle_offset = -90
|
|
|
26 auto_alpha_colors = yes
|
|
|
27 auto_alpha_steps = 5
|
|
|
28 </image>
|
|
|
29
|
|
|
30 <image>
|
|
|
31 dir = .
|
|
|
32 file = circos.png
|
|
|
33 # radius of inscribed circle in image
|
|
|
34 radius = 2000p
|
|
|
35 background = white
|
|
|
36 # by default angle=0 is at 3 o'clock position
|
|
|
37 angle_offset = -90
|
|
|
38 auto_alpha_colors = yes
|
|
|
39 auto_alpha_steps = 5
|
|
|
40 </image>
|
|
|
41
|
|
|
42
|
|
|
43 chromosomes_units = 1
|
|
|
44 chromosomes_display_default = yes
|
|
|
45
|
|
|
46 <plots>
|
|
|
47
|
|
|
48 <plot>
|
|
|
49 type = highlight
|
|
|
50 file = alignment.txt
|
|
|
51 r1 = 1.51r
|
|
|
52 r0 = 1.79r
|
|
|
53 layers = 1
|
|
|
54 margin = 0
|
|
|
55 stroke_thickness = 4
|
|
|
56 stroke_color = 0,132,169
|
|
|
57 fill_color = 0,132,169
|
|
|
58 </plot>
|
|
|
59
|
|
|
60 <plot>
|
|
|
61 type = highlight
|
|
|
62 file = gap.txt
|
|
|
63 r1 = 1.51r
|
|
|
64 r0 = 1.79r
|
|
|
65 layers = 1
|
|
|
66 margin = 0u
|
|
|
67 stroke_thickness = 4
|
|
|
68 stroke_color = 255,180,65
|
|
|
69 fill_color = 255,180,65
|
|
|
70 </plot>
|
|
|
71
|
|
|
72 <plot>
|
|
|
73 type = text
|
|
|
74 file = tick.txt
|
|
|
75
|
|
|
76 r0 = 1.05r
|
|
|
77 r1 = 1.35r
|
|
|
78
|
|
|
79 label_size = 96p
|
|
|
80 padding = 0p
|
|
|
81 rpadding = 0p
|
|
|
82 </plot>
|
|
|
83
|
|
|
84 </plots>
|
|
|
85
|
|
|
86 <<include ideogram.conf>>
|
|
|
87 ]]></configfile>
|
|
|
88 </xml>
|
|
|
89 <xml name="configfile_ideogram_conf">
|
|
|
90 <configfile name="ideogram_conf"><![CDATA[
|
|
|
91 <ideogram>
|
|
|
92
|
|
|
93 radius = .5r
|
|
|
94 thickness = 0r
|
|
|
95
|
|
|
96 <spacing>
|
|
|
97
|
|
|
98 default = 0u
|
|
|
99 break = 0u
|
|
|
100
|
|
|
101 axis_break_at_edge = no
|
|
|
102 axis_break = no
|
|
|
103 axis_break_style = 2
|
|
|
104
|
|
|
105 <break_style 1>
|
|
|
106 stroke_color = black
|
|
|
107 fill_color = blue
|
|
|
108 thickness = 0.25r
|
|
|
109 stroke_thickness = 2p
|
|
|
110 </break>
|
|
|
111
|
|
|
112 <break_style 2>
|
|
|
113 stroke_color = black
|
|
|
114 stroke_thickness = 5p
|
|
|
115 thickness = 2r
|
|
|
116 </break>
|
|
|
117
|
|
|
118 </spacing>
|
|
|
119
|
|
|
120 </ideogram>
|
|
|
121 ]]></configfile>
|
|
|
122 </xml>
|
|
|
123 <xml name="configfile_tick_base_conf">
|
|
|
124 <configfile name="tick_base_conf"><![CDATA[
|
|
|
125
|
|
|
126 show_ticks = yes
|
|
|
127 show_tick_labels = yes
|
|
|
128 label_rorate = no
|
|
|
129
|
|
|
130 <ticks>
|
|
|
131
|
|
|
132 radius = 1.5r
|
|
|
133 label_size = 1r
|
|
|
134 orientation = in
|
|
|
135
|
|
|
136 <tick>
|
|
|
137 spacing = TICK_MAJOR
|
|
|
138 size = 125p
|
|
|
139 thickness = 7.5p
|
|
|
140 show_label = no
|
|
|
141 </tick>
|
|
|
142
|
|
|
143 <tick>
|
|
|
144 spacing = TICK_MINOR
|
|
|
145 size = 75p
|
|
|
146 show_label = no
|
|
|
147 thickness = 4p
|
|
|
148 </tick>
|
|
|
149
|
|
|
150
|
|
|
151 </ticks>
|
|
|
152 ]]></configfile>
|
|
|
153 </xml>
|
|
|
154 </macros>
|
