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

Initial upload
author ktnyt
date Fri, 26 Jun 2015 05:19:29 -0400
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-1:000000000000 0:8300eb051bea
1 application: gnucleotideperiodicity [
2 documentation: "Checks the periodicity of certain oligonucleotides"
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 seek periodicity"
31 default: "50"
32 ]
33
34 string: nucleotide [
35 information: "Nucleotide to search"
36 knowntype: "nucleotide codes"
37 default: "aa"
38 ]
39
40 boolean: accid [
41 information: "Include to use sequence accession ID as query"
42 default: "N"
43 ]
44
45 endsection: advanced
46
47 section: output [
48 information: "Output section"
49 type: "page"
50 ]
51
52 toggle: plot [
53 information: "Include to plot result"
54 default: "Y"
55 ]
56
57 xygraph: graph [
58 standard: "$(plot)"
59 gtitle: "ggcskew of $(sequence.name)"
60 ]
61
62 outfile: outfile [
63 standard: "@(!$(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