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1 application: gnucleotideperiodicity [
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2 documentation: "Checks the periodicity of certain oligonucleotides"
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3 groups: "Nucleic:Composition"
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4 embassy: "gembassy"
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5 relations: "EDAM_topic:0157 Sequence composition analysis"
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6 relations: "EDAM_operation:0377 Sequence composition calculation
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7 (nucleic acid)"
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8 ]
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9
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10 section: input [
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11 information: "Input section"
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12 type: "page"
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13 ]
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14
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15 seqall: sequence [
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16 parameter: "Y"
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17 type: "nucleotide"
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18 features: "Y"
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19 relations: "EDAM_data:0849 Sequence record"
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20 ]
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21
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22 endsection: input
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23
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24 section: advanced [
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25 information: "Advanced section"
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26 type: "page"
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27 ]
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28
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29 integer: window [
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30 information: "Window size to seek periodicity"
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31 default: "50"
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32 ]
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33
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34 string: nucleotide [
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35 information: "Nucleotide to search"
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36 knowntype: "nucleotide codes"
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37 default: "aa"
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38 ]
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39
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40 boolean: accid [
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41 information: "Include to use sequence accession ID as query"
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42 default: "N"
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43 ]
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44
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45 endsection: advanced
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46
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47 section: output [
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48 information: "Output section"
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49 type: "page"
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50 ]
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51
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52 toggle: plot [
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53 information: "Include to plot result"
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54 default: "Y"
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55 ]
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56
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57 xygraph: graph [
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58 standard: "$(plot)"
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59 gtitle: "ggcskew of $(sequence.name)"
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60 ]
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61
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62 outfile: outfile [
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63 standard: "@(!$(plot))"
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64 nullok: "Y"
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65 nulldefault: "$(plot)"
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66 information: "Program compseq output file (optional)"
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67 knowntype: "compseq output"
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68 relations: "EDAM_data:3086 Nucleic acid sequence composition"
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69 ]
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70
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71 endsection: output
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