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1 application: ggcwin [
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2 documentation: "Calculates and plots the GC content along the given genome"
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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 observe"
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31 default: "10000"
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32 ]
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33
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34 boolean: at [
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35 information: "Include for observing AT skew instead of GC skew"
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36 default: "N"
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37 ]
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38
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39 boolean: purine [
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40 information: "Include for observing purine (AG/TC) skew"
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41 default: "N"
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42 ]
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43
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44 boolean: keto [
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45 information: "Include for observing keto (TG/AC) skew"
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46 default: "N"
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47 ]
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48
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49 endsection: advanced
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50
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51 section: output [
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52 information: "Output section"
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53 type: "page"
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54 ]
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55
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56 toggle: plot [
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57 information: "Include to plot result"
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58 default: "Y"
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59 ]
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60
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61 xygraph: graph [
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62 standard: "$(plot)"
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63 gtitle: "ggcwin of $(sequence.name)"
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64 ]
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65
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66 outfile: outfile [
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67 standard: "@(!$(plot))"
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68 nullok: "Y"
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69 nulldefault: "$(plot)"
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70 information: "Program compseq output file (optional)"
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71 knowntype: "compseq output"
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72 relations: "EDAM_data:3086 Nucleic acid sequence composition"
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73 ]
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74
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75 endsection: output
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