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0
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1 application: gwvalue [
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2 documentation: "Calculates the 'relative adaptiveness of each codon' (W)"
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3 groups: "Nucleic:Codon Usage"
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4 embassy: "gembassy"
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5 relations: "EDAM_operation:0286 Codon usage analysis"
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6 relations: "EDAM_topic:0107 Codon usage analysis"
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7 ]
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8
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9 section: input [
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10 information: "Input section"
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11 type: "page"
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12 ]
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13
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14 seqall: sequence [
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15 parameter: "Y"
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16 type: "nucleotide"
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17 features: "Y"
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18 relations: "EDAM_data:0849 Sequence record"
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19 ]
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20
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21 endsection: input
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22
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23 section: advanced [
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24 information: "Advanced section"
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25 type: "page"
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26 ]
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27
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28 string: include [
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29 information: "Regular expression to include genes in a reference set a
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30 reference set in several studies are in-built 1: Nakamura
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31 and Tabata, 2: Sharp and Li, 3: Sakai et al."
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32 knowntype: "regular expression"
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33 default: "ribosomal.*protein"
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34 ]
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35
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36 string: exclude [
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37 information: "Regular expression to exclude genes from a reference set"
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38 knowntype: "regular expression"
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39 default: "[Mm]itochondrial"
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40 ]
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41
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42 boolean: accid [
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43 information: "Include to use sequence accession ID as query"
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44 default: "N"
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45 ]
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46
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47 endsection: advanced
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48
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49 section: output [
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50 information: "Output section"
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51 type: "page"
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52 ]
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53
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54 outfile: outfile [
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55 parameter: "Y"
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56 information: "Codon usage output file"
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57 knowntype: "codon usage"
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58 relations: "EDAM_data:2865 Codon usage bias"
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59 ]
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60
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61 endsection: output
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