Mercurial > repos > iuc > pygenometracks

comparison test-data/test1.ini @ 5:eca03db4f612 draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
author iuc
date Wed, 08 Jan 2020 09:15:19 -0500
parents
children 14e7c35f3d00
comparison
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4:c237ba772225 5:eca03db4f612
1 [x-axis]
2 where = top
3 [hic_section_0_0]
4 file = test-data/Li_et_al_2015.h5
5 file_type = hic_matrix
6 title = Kc DpnII (Li et al. 2015)
7 depth = 200000
8 colormap = RdYlBu_r
9 transform = log1p
10 scale_factor = 1.0
11 rasterize = true
12 [tads_0_0]
13 file = test-data/domains.bed
14 file_type = domains
15 border_color = black
16 color = none
17 overlay_previous = share-y
18 [spacer]
19 height = 0.05
20 [chrom states_2]
21 file = test-data/tad_classification.bed
22 title = TAD state
23 color = bed_rgb
24 border_color = #000000
25 display = collapsed
26 height = 0.5
27 line_width = 0.5
28 file_type = bed
29 [bedgraph_matrix_3]
30 file = test-data/tad_score.gz
31 title = TAD separation score (Ramirez et al.)
32 height = 10.0
33 file_type = bedgraph_matrix
34 show_data_range = false
35 plot_horizontal_lines = false
36 pos_score_in_bin = center
37 [spacer]
38 height = 1.0
39 [bedgraph_5]
40 file = test-data/bedgraph_chrx_2e6_5e6.bg
41 title = bedgraph
42 color = blue
43 alpha = 1.0
44 height = 4.0
45 show_data_range = false
46 nans_to_zeros = false
47 use_middle = false
48 file_type = bedgraph
49 type = fill
50 overlay_previous = no
51 [bigwig_6]
52 file = test-data/bigwig_chrx_2e6_5e6.bw
53 title = rep 1 test fill
54 color = blue
55 alpha = 1.0
56 height = 4.0
57 summary_method = mean
58 nans_to_zeros = false
59 type = fill
60 show_data_range = false
61 file_type = bigwig
62 overlay_previous = no
63 [bigwig_7]
64 file = test-data/bigwig_chrx_2e6_5e6.bw
65 title = rep 1 test line
66 color = red
67 alpha = 1.0
68 height = 4.0
69 summary_method = mean
70 nans_to_zeros = false
71 type = line:1.0
72 show_data_range = false
73 file_type = bigwig
74 overlay_previous = no
75 [bigwig_8]
76 file = test-data/bigwig_chrx_2e6_5e6.bw
77 title = rep 1 test lw=0.2
78 color = red
79 alpha = 1.0
80 height = 4.0
81 summary_method = mean
82 nans_to_zeros = false
83 type = line:0.1
84 show_data_range = false
85 file_type = bigwig
86 overlay_previous = no
87 [bigwig_9]
88 file = test-data/bigwig_chrx_2e6_5e6.bw
89 title = rep 1 test point:0.5
90 color = black
91 alpha = 1.0
92 height = 4.0
93 summary_method = mean
94 nans_to_zeros = false
95 type = points:0.5
96 show_data_range = false
97 file_type = bigwig
98 overlay_previous = no
99 [spacer]
100 height = 0.5
101 [genes_11_0]
102 file = test-data/dm3_genes.bed.gz
103 title = genes
104 color = #000000
105 border_color = #000000
106 style = flybase
107 height_utr = 1.0
108 color_utr = grey
109 display = stacked
110 height = 5.0
111 labels = true
112 file_type = bed
113 fontsize = 10
114 global_max_row = false
115 max_labels = 60
116 line_width = 0.5
117 arrowhead_included = false
118 overlay_previous = no
119 [spacer]
120 height = 1.0
121 [genes_13_0]
122 file = test-data/dm3_genes.bed.gz
123 title = max num rows 3
124 color = #000000
125 border_color = #000000
126 style = flybase
127 height_utr = 1.0
128 color_utr = grey
129 display = stacked
130 height = 3.0
131 labels = true
132 file_type = bed
133 fontsize = 8
134 gene_rows = 3
135 global_max_row = false
136 max_labels = 60
137 line_width = 0.5
138 arrowhead_included = false
139 overlay_previous = no
140 [spacer]
141 height = 1.0
142 [genes_15_0]
143 file = test-data/dm3_genes.bed6.gz
144 title = bed6 global max row
145 color = #000000
146 border_color = #000000
147 style = flybase
148 height_utr = 1.0
149 color_utr = grey
150 display = stacked
151 height = 20.0
152 labels = true
153 file_type = bed
154 fontsize = 10
155 global_max_row = true
156 max_labels = 60
157 line_width = 0.5
158 arrowhead_included = false
159 overlay_previous = no
160 [vlines_16]
161 file = test-data/domains.bed
162 type = vlines