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comparison GEMBASSY-1.0.3/acd/greporiter.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: greporiter [
2 documentation: "Gets the positions of replication origin and terminus"
3 groups: "Nucleic:Composition"
4 embassy: "gembassy"
5 relations: "EDAM_topic:3073 Nucleic acid feature detection"
6 relations: "EDAM_operation:0415 Nucleic acid feature prediction"
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: oriloc [
29 information: "Include Oriloc for prediction"
30 default: "N"
31 ]
32
33 boolean: gcskew [
34 information: "Include to use GC skew shift-point for prediction"
35 default: "N"
36 ]
37
38 integer: difthreshold [
39 information: "Distance between the GC skew shift point and predicted dif
40 site expressed as the precentage of genome size, used as a
41 threshold to retrieve dif sequence from the database"
42 default: "0"
43 ]
44
45 boolean: dbonly [
46 information: "Include to only use values available in databases and to
47 suppress prediction"
48 default: "N"
49 ]
50
51 boolean: accid [
52 information: "Include to use sequence accession ID as query"
53 default: "N"
54 ]
55
56 endsection: advanced
57
58 section: output [
59 information: "Output section"
60 type: "page"
61 ]
62
63 outfile: outfile [
64 parameter: "Y"
65 relations: "EDAM_data:3127 Nucleic acid features (replication and
66 recombination)"
67 ]
68
69 endsection: output