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comparison GEMBASSY-1.0.3/acd/gdeltagcskew.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: gdeltagcskew [
2 documentation: "Calculates strand bias of bacterial genome using delta GC skew index"
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 boolean: at [
30 information: "Include when observing AT skew instead of GC skew "
31 default: "N"
32 ]
33
34 boolean: purine [
35 information: "Include when observing purine (AG/TC) skew"
36 default: "N"
37 ]
38
39 boolean: keto [
40 information: "Include when observing keto (TG/AC) skew"
41 default: "N"
42 ]
43
44 selection: method [
45 information: "Choose the nucleotides to use 'degenerate', 'gc3', or 'all'"
46 values: "degenerate;gc3;all"
47 default: "degenerate"
48 ]
49
50 boolean: accid [
51 information: "Include to use sequence accession ID as query"
52 default: "N"
53 ]
54
55 endsection: advanced
56
57 section: output [
58 information: "Output section"
59 type: "page"
60 ]
61
62 outfile: outfile [
63 parameter: "Y"
64 information: "Program compseq output file"
65 knowntype: "compseq output"
66 relations: "EDAM_data:3086 Nucleic acid sequence composition"
67 ]
68
69 endsection: output