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1 application: goligomersearch [
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2 documentation: "Searches oligomers in given sequence"
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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 string: oligomer [
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23 parameter: "Y"
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24 knowntype: "nucleotide codes"
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25 information: "Oligomer to search"
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26 ]
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27
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28 endsection: input
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29
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30 section: advanced [
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31 information: "Advanced section"
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32 type: "page"
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33 ]
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34
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35 selection: return [
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36 information: "'position' to return list of positions where oligomers are
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37 found, 'oligo' to return list of oligomers found ordered by
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38 positions, 'both' to return a hash with positions as keys and
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39 oligomers as values, 'distribution' to return four values
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40 about the distribution of given oligomer"
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41 values: "position;oligo;both;distribution"
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42 default: "position"
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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 outfile: outfile [
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53 parameter: "Y"
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54 information: "Program compseq output file"
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55 knowntype: "compseq output"
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56 relations: "EDAM_data:3086 Nucleic acid sequence composition"
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57 ]
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58
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59 endsection: output
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