Mercurial > repos > iuc > pygenometracks

comparison test-data/test1.ini @ 12:14e7c35f3d00 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 26f4478d873b339c5a1eccf18df68700a145a404
author iuc
date Wed, 25 Jan 2023 15:33:12 +0000
parents eca03db4f612
children
comparison
equal deleted inserted replaced
11:7dd841a32245 12:14e7c35f3d00
1 [x-axis] 1 [x-axis]
2 where = top 2 where = top
3 [hic_section_0_0] 3 [hic_section_1_0]
4 file = test-data/Li_et_al_2015.h5 4 file = test-data/Li_et_al_2015.h5
5 file_type = hic_matrix 5 file_type = hic_matrix
6 title = Kc DpnII (Li et al. 2015) 6 title = Kc DpnII (Li et al. 2015)
7 depth = 200000 7 depth = 200000
8 colormap = RdYlBu_r 8 colormap = RdYlBu_r
9 transform = log1p 9 transform = log1p
10 scale_factor = 1.0 10 scale_factor = 1.0
11 rasterize = true 11 rasterize = true
12 [tads_0_0] 12 [tads_1_0]
13 file = test-data/domains.bed 13 file = test-data/domains.bed
14 file_type = domains 14 file_type = domains
15 border_color = black 15 border_color = black
16 color = none 16 color = none
17 overlay_previous = share-y 17 overlay_previous = share-y
18 [spacer] 18 [spacer]
19 height = 0.05 19 height = 0.05
20 [chrom states_2] 20 [chrom states_3]
21 file = test-data/tad_classification.bed 21 file = test-data/tad_classification.bed
22 title = TAD state 22 title = TAD state
23 color = bed_rgb 23 color = bed_rgb
24 border_color = #000000 24 border_color = #000000
25 display = collapsed 25 display = collapsed
26 height = 0.5 26 height = 0.5
27 line_width = 0.5 27 line_width = 0.5
28 file_type = bed 28 file_type = bed
29 [bedgraph_matrix_3] 29 [bedgraph_matrix_4]
30 file = test-data/tad_score.gz 30 file = test-data/tad_score.gz
31 title = TAD separation score (Ramirez et al.) 31 title = TAD separation score (Ramirez et al.)
32 height = 10.0 32 height = 10.0
33 type = matrix
33 file_type = bedgraph_matrix 34 file_type = bedgraph_matrix
34 show_data_range = false
35 plot_horizontal_lines = false
36 pos_score_in_bin = center
37 [spacer] 35 [spacer]
38 height = 1.0 36 height = 1.0
39 [bedgraph_5] 37 [bedgraph_6]
40 file = test-data/bedgraph_chrx_2e6_5e6.bg 38 file = test-data/bedgraph_chrx_2e6_5e6.bg
41 title = bedgraph 39 title = bedgraph
42 color = blue 40 color = blue
43 alpha = 1.0 41 alpha = 1.0
44 height = 4.0 42 height = 4.0
46 nans_to_zeros = false 44 nans_to_zeros = false
47 use_middle = false 45 use_middle = false
48 file_type = bedgraph 46 file_type = bedgraph
49 type = fill 47 type = fill
50 overlay_previous = no 48 overlay_previous = no
51 [bigwig_6] 49 [bigwig_7]
52 file = test-data/bigwig_chrx_2e6_5e6.bw 50 file = test-data/bigwig_chrx_2e6_5e6.bw
53 title = rep 1 test fill 51 title = rep 1 test fill
54 color = blue 52 color = blue
55 alpha = 1.0 53 alpha = 1.0
56 height = 4.0 54 height = 4.0
58 nans_to_zeros = false 56 nans_to_zeros = false
59 type = fill 57 type = fill
60 show_data_range = false 58 show_data_range = false
61 file_type = bigwig 59 file_type = bigwig
62 overlay_previous = no 60 overlay_previous = no
63 [bigwig_7] 61 [bigwig_8]
64 file = test-data/bigwig_chrx_2e6_5e6.bw 62 file = test-data/bigwig_chrx_2e6_5e6.bw
65 title = rep 1 test line 63 title = rep 1 test line
66 color = red 64 color = red
67 alpha = 1.0 65 alpha = 1.0
68 height = 4.0 66 height = 4.0
70 nans_to_zeros = false 68 nans_to_zeros = false
71 type = line:1.0 69 type = line:1.0
72 show_data_range = false 70 show_data_range = false
73 file_type = bigwig 71 file_type = bigwig
74 overlay_previous = no 72 overlay_previous = no
75 [bigwig_8] 73 [bigwig_9]
76 file = test-data/bigwig_chrx_2e6_5e6.bw 74 file = test-data/bigwig_chrx_2e6_5e6.bw
77 title = rep 1 test lw=0.2 75 title = rep 1 test lw=0.2
78 color = red 76 color = red
79 alpha = 1.0 77 alpha = 1.0
80 height = 4.0 78 height = 4.0
82 nans_to_zeros = false 80 nans_to_zeros = false
83 type = line:0.1 81 type = line:0.1
84 show_data_range = false 82 show_data_range = false
85 file_type = bigwig 83 file_type = bigwig
86 overlay_previous = no 84 overlay_previous = no
87 [bigwig_9] 85 [bigwig_10]
88 file = test-data/bigwig_chrx_2e6_5e6.bw 86 file = test-data/bigwig_chrx_2e6_5e6.bw
89 title = rep 1 test point:0.5 87 title = rep 1 test point:0.5
90 color = black 88 color = black
91 alpha = 1.0 89 alpha = 1.0
92 height = 4.0 90 height = 4.0
96 show_data_range = false 94 show_data_range = false
97 file_type = bigwig 95 file_type = bigwig
98 overlay_previous = no 96 overlay_previous = no
99 [spacer] 97 [spacer]
100 height = 0.5 98 height = 0.5
101 [genes_11_0] 99 [genes_12_0]
102 file = test-data/dm3_genes.bed.gz 100 file = test-data/dm3_genes.bed.gz
103 title = genes 101 title = genes
104 color = #000000 102 color = #000000
105 border_color = #000000 103 border_color = #000000
106 style = flybase 104 style = flybase
107 height_utr = 1.0 105 height_utr = 1.0
108 color_utr = grey 106 color_utr = grey
109 display = stacked 107 display = stacked
110 height = 5.0 108 height = 5.0
111 labels = true 109 labels = true
110 fontsize = 10
112 file_type = bed 111 file_type = bed
113 fontsize = 10
114 global_max_row = false 112 global_max_row = false
115 max_labels = 60 113 max_labels = 60
116 line_width = 0.5 114 line_width = 0.5
117 arrowhead_included = false 115 arrowhead_included = false
118 overlay_previous = no 116 overlay_previous = no
119 [spacer] 117 [spacer]
120 height = 1.0 118 height = 1.0
121 [genes_13_0] 119 [genes_14_0]
122 file = test-data/dm3_genes.bed.gz 120 file = test-data/dm3_genes.bed.gz
123 title = max num rows 3 121 title = max num rows 3
124 color = #000000 122 color = #000000
125 border_color = #000000 123 border_color = #000000
126 style = flybase 124 style = flybase
137 line_width = 0.5 135 line_width = 0.5
138 arrowhead_included = false 136 arrowhead_included = false
139 overlay_previous = no 137 overlay_previous = no
140 [spacer] 138 [spacer]
141 height = 1.0 139 height = 1.0
142 [genes_15_0] 140 [genes_16_0]
143 file = test-data/dm3_genes.bed6.gz 141 file = test-data/dm3_genes.bed6.gz
144 title = bed6 global max row 142 title = bed6 global max row
145 color = #000000 143 color = #000000
146 border_color = #000000 144 border_color = #000000
147 style = flybase 145 style = flybase
155 global_max_row = true 153 global_max_row = true
156 max_labels = 60 154 max_labels = 60
157 line_width = 0.5 155 line_width = 0.5
158 arrowhead_included = false 156 arrowhead_included = false
159 overlay_previous = no 157 overlay_previous = no
160 [vlines_16] 158 [vlines_17]
161 file = test-data/domains.bed 159 file = test-data/domains.bed
162 type = vlines 160 type = vlines