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comparison GEMBASSY-1.0.3/acd/ggcwin.acd @ 0:8300eb051bea draft

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author ktnyt
date Fri, 26 Jun 2015 05:19:29 -0400
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1 application: ggcwin [
2 documentation: "Calculates and plots the GC content along the given genome"
3 groups: "Nucleic:Composition"
4 embassy: "gembassy"
5 relations: "EDAM_topic:0157 Sequence composition analysis"
6 relations: "EDAM_operation:0377 Sequence composition calculation
7 (nucleic acid)"
8 ]
9
10 section: input [
11 information: "Input section"
12 type: "page"
13 ]
14
15 seqall: sequence [
16 parameter: "Y"
17 type: "nucleotide"
18 features: "Y"
19 relations: "EDAM_data:0849 Sequence record"
20 ]
21
22 endsection: input
23
24 section: advanced [
25 information: "Advanced section"
26 type: "page"
27 ]
28
29 integer: window [
30 information: "Window size to observe"
31 default: "10000"
32 ]
33
34 boolean: at [
35 information: "Include for observing AT skew instead of GC skew"
36 default: "N"
37 ]
38
39 boolean: purine [
40 information: "Include for observing purine (AG/TC) skew"
41 default: "N"
42 ]
43
44 boolean: keto [
45 information: "Include for observing keto (TG/AC) skew"
46 default: "N"
47 ]
48
49 endsection: advanced
50
51 section: output [
52 information: "Output section"
53 type: "page"
54 ]
55
56 toggle: plot [
57 information: "Include to plot result"
58 default: "Y"
59 ]
60
61 xygraph: graph [
62 standard: "$(plot)"
63 gtitle: "ggcwin of $(sequence.name)"
64 ]
65
66 outfile: outfile [
67 standard: "@(!$(plot))"
68 nullok: "Y"
69 nulldefault: "$(plot)"
70 information: "Program compseq output file (optional)"
71 knowntype: "compseq output"
72 relations: "EDAM_data:3086 Nucleic acid sequence composition"
73 ]
74
75 endsection: output