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1 <tool id="revcompl" name="reverse complement">
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2 <description>of DNA/RNA sequences</description>
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3 <command interpreter="python">revcompl.py $input $output $fasta $rna </command>
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4 <inputs>
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5 <param name="input" format="txt" type="data" label="Original sequence file"/>
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6 <param name="fasta" label="Check if input is fasta format" type="boolean" truevalue="fasta" falsevalue="txt" checked="False"/>
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7 <param name="rna" label="Check if need to output as RNA sequences" type="boolean" truevalue="rna" falsevalue="dna" checked="False"/>
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8 </inputs>
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9 <outputs>
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10 <data format="input" name="output" />
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11 </outputs>
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12 <help>
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13
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14 **What it does**
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15
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16 This tool outputs reverse complementary of DNA/RNA sequences in the input file. The input can be fasta format or raw sequences (each line is a sequence).
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17
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18 Degenerate nucleotides are supported. Here is the match table:
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19
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20 A to T/U
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21
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22 C to G
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23
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24 G to C
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25
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26 T/U to A
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27
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28 M to K
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29
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30 W to W
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31
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32 S to S
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33
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34 R to Y
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35
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36 Y to R
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37
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38 N to N
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39
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40 </help>
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41 </tool>
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