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

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Initial upload
author ktnyt
date Fri, 26 Jun 2015 05:19:29 -0400
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-1:000000000000 0:8300eb051bea
1 application: gcbi [
2 documentation: "Calculates the codon bias index (CBI)"
3 groups: "Nucleic:Codon usage"
4 embassy: "gembassy"
5 relations: "EDAM_operation:0286 Codon usage analysis"
6 relations: "EDAM_topic:0107 Codon usage analysis"
7 ]
8
9 section: input [
10 information: "Input section"
11 type: "page"
12 ]
13
14 seqall: sequence [
15 parameter: "Y"
16 type: "nucleotide"
17 features: "Y"
18 relations: "EDAM_data:0849 Sequence record"
19 ]
20
21 endsection: input
22
23 section: advanced [
24 information: "Advanced section"
25 type: "page"
26 ]
27
28 boolean: translate [
29 information: "Include when translating using standard codon table"
30 default: "N"
31 ]
32
33 string: delkey [
34 information: "Regular expression to delete key"
35 knowntype: "regular expression"
36 default: "[^ACDEFGHIKLMNPQRSTVWYacgtU]"
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 outfile: outfile [
52 parameter: "Y"
53 information: "Codon usage output file"
54 knowntype: "codon usage"
55 relations: "EDAM_data:2865 Codon usage bias"
56 ]
57
58 endsection: output