|
0
|
1 <filter>
|
|
|
2 SNV_FILTER
|
|
|
3 SNV_FILTER_NUM
|
|
|
4 CHR
|
|
|
5 </filter>
|
|
|
6
|
|
|
7 <files>
|
|
|
8 ROOT
|
|
|
9 CNV
|
|
|
10 SNV
|
|
|
11 MART
|
|
|
12 CIRCOS
|
|
|
13 </files>
|
|
|
14
|
|
|
15 <fields>
|
|
|
16 <cnv>
|
|
|
17 key = sample,chr
|
|
|
18 0 = sample
|
|
|
19 1 = chr
|
|
|
20 2 = start
|
|
|
21 3 = end
|
|
|
22 5 = avg
|
|
|
23 6 = category:lc
|
|
|
24 </cnv>
|
|
|
25
|
|
|
26 <sv>
|
|
|
27 key = id,sample
|
|
|
28 4 = chr
|
|
|
29 5 = start
|
|
|
30 6 = end
|
|
|
31 8 = type:lc
|
|
|
32 15 = sample
|
|
|
33 47 = id
|
|
|
34 53 = aa
|
|
|
35 </sv>
|
|
|
36
|
|
|
37 <genes>
|
|
|
38 key = chr
|
|
|
39 0 = id
|
|
|
40 2 = end
|
|
|
41 3 = start
|
|
|
42 4 = chr
|
|
|
43 5 = name
|
|
|
44 </genes>
|
|
|
45 </fields>
|
|
|
46
|
|
|
47 <cnv>
|
|
|
48 filter = yes
|
|
|
49 <types>
|
|
|
50 amp = 20
|
|
|
51 gain = 15
|
|
|
52 neut = 0
|
|
|
53 hetd = 10
|
|
|
54 homd = 5
|
|
|
55 hlamp = 0
|
|
|
56 </types>
|
|
|
57 </cnv>
|
|
|
58
|
|
|
59 <sv>
|
|
|
60 filter = yes
|
|
|
61 top_damage_only = yes
|
|
|
62 <types>
|
|
|
63 nonsense_mutation = 35
|
|
|
64 frame_shift_del = 30
|
|
|
65 frame_shift_ins = 25
|
|
|
66 in_frame_del = 20
|
|
|
67 in_frame_ins = 15
|
|
|
68 splice_site = 10
|
|
|
69 nonstop_mutation = 5
|
|
|
70 missense_mutation = 1
|
|
|
71 </types>
|
|
|
72 </sv> |
