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comparison GEMBASSY-1.0.3/acd/gviewcds.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: gviewcds [
2 documentation: "Displays a graph of nucleotide contents around start and stop codons"
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: length [
30 information: "Length in bases to show around start/stop codons"
31 default: "100"
32 ]
33
34 integer: gap [
35 information: "Gap shown in graph in between start/stop codon neighbors"
36 default: "3"
37 ]
38
39 boolean: accid [
40 information: "Include to use sequence accession ID as query"
41 default: "N"
42 ]
43
44 endsection: advanced
45
46 section: output [
47 information: "Output section"
48 type: "page"
49 ]
50
51 toggle: plot [
52 information: "Include to plot result"
53 default: "Y"
54 ]
55
56 xygraph: graph [
57 standard: "$(plot)"
58 gtitle: "gviewcds of $(sequence.name)"
59 multiple: "4"
60 ]
61
62 outfile: outfile [
63 standard: "@(!$(plot))"
64 nullok: "Y"
65 nulldefault: "$(plot)"
66 information: "Program compseq output file (optional)"
67 knowntype: "compseq output"
68 relations: "EDAM_data:3086 Nucleic acid sequence composition"
69 ]
70
71 endsection: output