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comparison GEMBASSY-1.0.3/acd/goligomersearch.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: goligomersearch [
2 documentation: "Searches oligomers in given sequence"
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 string: oligomer [
23 parameter: "Y"
24 knowntype: "nucleotide codes"
25 information: "Oligomer to search"
26 ]
27
28 endsection: input
29
30 section: advanced [
31 information: "Advanced section"
32 type: "page"
33 ]
34
35 selection: return [
36 information: "'position' to return list of positions where oligomers are
37 found, 'oligo' to return list of oligomers found ordered by
38 positions, 'both' to return a hash with positions as keys and
39 oligomers as values, 'distribution' to return four values
40 about the distribution of given oligomer"
41 values: "position;oligo;both;distribution"
42 default: "position"
43 ]
44
45 endsection: advanced
46
47 section: output [
48 information: "Output section"
49 type: "page"
50 ]
51
52 outfile: outfile [
53 parameter: "Y"
54 information: "Program compseq output file"
55 knowntype: "compseq output"
56 relations: "EDAM_data:3086 Nucleic acid sequence composition"
57 ]
58
59 endsection: output