Mercurial > repos > fubar > jbrowse2

comparison test-data/bw/test.xml @ 3:2de9f585505b draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
author fubar
date Tue, 09 Jan 2024 02:35:52 +0000
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2:37b2c26c7b9b 3:2de9f585505b
1 <?xml version="1.0"?>
2 <root>
3 <metadata>
4 <genomes>
5 <genome>test-data/merlin.fa</genome>
6 </genomes>
7 <general>
8 <defaultLocation></defaultLocation>
9 <trackPadding>40</trackPadding>
10 <shareLink>true</shareLink>
11 <aboutDescription></aboutDescription>
12 <show_tracklist>true</show_tracklist>
13 <show_nav>true</show_nav>
14 <show_overview>false</show_overview>
15 <show_menu>true</show_menu>
16 <hideGenomeOptions>false</hideGenomeOptions>
17 </general>
18 </metadata>
19 <tracks>
20 <track cat="Scaling" format="wiggle">
21 <files>
22 <trackFile path="test-data/bw/data.bw" ext="bigwig" label="Auto Global"/>
23 </files>
24
25 <options>
26 <wiggle>
27 <type>JBrowse/View/Track/Wiggle/XYPlot</type>
28 <variance_band>true</variance_band>
29 <autoscale>global</autoscale>
30 <color_pos>__auto__</color_pos>
31 <color_neg>__auto__</color_neg>
32 <bicolor_pivot>zero</bicolor_pivot>
33 <scale>linear</scale>
34 </wiggle>
35 </options>
36 </track>
37 <track cat="Scaling" format="wiggle">
38 <files>
39 <trackFile path="test-data/bw/data.bw" ext="bigwig" label="Auto Local"/>
40 </files>
41
42 <options>
43 <wiggle>
44 <type>JBrowse/View/Track/Wiggle/XYPlot</type>
45 <variance_band>true</variance_band>
46 <autoscale>local</autoscale>
47 <color_pos>__auto__</color_pos>
48 <color_neg>__auto__</color_neg>
49 <bicolor_pivot>zero</bicolor_pivot>
50 <scale>linear</scale>
51 </wiggle>
52 </options>
53 </track>
54 <track cat="Scaling" format="wiggle">
55 <files>
56 <trackFile path="test-data/bw/data.bw" ext="bigwig" label="Manual"/>
57 </files>
58
59 <options>
60 <wiggle>
61 <type>JBrowse/View/Track/Wiggle/XYPlot</type>
62 <variance_band>false</variance_band>
63 <autoscale>fixed</autoscale>
64 <min>20</min>
65 <max>60</max>
66 <color_pos>__auto__</color_pos>
67 <color_neg>__auto__</color_neg>
68 <bicolor_pivot>zero</bicolor_pivot>
69 <scale>linear</scale>
70 </wiggle>
71 </options>
72 </track>
73
74
75 <track cat="Colouring" format="wiggle">
76 <files>
77 <trackFile path="test-data/bw/data.bw" ext="bigwig" label="Auto A"/>
78 <trackFile path="test-data/bw/data.bw" ext="bigwig" label="Auto B"/>
79 </files>
80
81 <options>
82 <wiggle>
83 <type>JBrowse/View/Track/Wiggle/XYPlot</type>
84 <variance_band>false</variance_band>
85 <autoscale>local</autoscale>
86
87 <color_pos>__auto__</color_pos>
88 <color_neg>__auto__</color_neg>
89 <bicolor_pivot>mean</bicolor_pivot>
90 <scale>linear</scale>
91 </wiggle>
92 </options>
93 </track>
94 <track cat="Colouring" format="wiggle">
95 <files>
96 <trackFile path="test-data/bw/data.bw" ext="bigwig" label="Manual"/>
97 </files>
98
99 <options>
100 <wiggle>
101 <type>JBrowse/View/Track/Wiggle/XYPlot</type>
102 <variance_band>false</variance_band>
103 <autoscale>local</autoscale>
104
105 <color_pos>#0000ff</color_pos>
106 <color_neg>#ff0000</color_neg>
107 <bicolor_pivot>mean</bicolor_pivot>
108 <scale>linear</scale>
109 </wiggle>
110 </options>
111 </track>
112 <track cat="Colouring" format="wiggle">
113 <files>
114 <trackFile path="test-data/bw/data.bw" ext="bigwig" label="Manual - Inverted"/>
115 </files>
116
117 <options>
118 <wiggle>
119 <type>JBrowse/View/Track/Wiggle/XYPlot</type>
120 <variance_band>false</variance_band>
121 <autoscale>local</autoscale>
122
123 <color_pos>#ff0000</color_pos>
124 <color_neg>#0000ff</color_neg>
125 <bicolor_pivot>mean</bicolor_pivot>
126 <scale>log</scale>
127 </wiggle>
128 </options>
129 </track>
130 <track cat="Colouring" format="wiggle">
131 <files>
132 <trackFile path="test-data/bw/data.bw" ext="bigwig" label="Nonstandard Pivot"/>
133 </files>
134
135 <options>
136 <wiggle>
137 <type>JBrowse/View/Track/Wiggle/XYPlot</type>
138 <variance_band>false</variance_band>
139 <autoscale>local</autoscale>
140
141 <color_pos>#0000ff</color_pos>
142 <color_neg>#ff0000</color_neg>
143 <bicolor_pivot>100</bicolor_pivot>
144 <scale>linear</scale>
145 </wiggle>
146 </options>
147 </track>
148 </tracks>
149 </root>