Mercurial > repos > xuebing > sharplab_seq_motif
comparison mytools/revcompl.xml @ 0:39217fa39ff2
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| author | xuebing |
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| date | Tue, 13 Mar 2012 23:34:52 -0400 |
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| -1:000000000000 | 0:39217fa39ff2 |
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| 1 <tool id="revcompl" name="reverse complement"> | |
| 2 <description>of DNA/RNA sequences</description> | |
| 3 <command interpreter="python">revcompl.py $input $output $fasta $rna </command> | |
| 4 <inputs> | |
| 5 <param name="input" format="txt" type="data" label="Original sequence file"/> | |
| 6 <param name="fasta" label="Check if input is fasta format" type="boolean" truevalue="fasta" falsevalue="txt" checked="False"/> | |
| 7 <param name="rna" label="Check if need to output as RNA sequences" type="boolean" truevalue="rna" falsevalue="dna" checked="False"/> | |
| 8 </inputs> | |
| 9 <outputs> | |
| 10 <data format="input" name="output" /> | |
| 11 </outputs> | |
| 12 <help> | |
| 13 | |
| 14 **What it does** | |
| 15 | |
| 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). | |
| 17 | |
| 18 Degenerate nucleotides are supported. Here is the match table: | |
| 19 | |
| 20 A to T/U | |
| 21 | |
| 22 C to G | |
| 23 | |
| 24 G to C | |
| 25 | |
| 26 T/U to A | |
| 27 | |
| 28 M to K | |
| 29 | |
| 30 W to W | |
| 31 | |
| 32 S to S | |
| 33 | |
| 34 R to Y | |
| 35 | |
| 36 Y to R | |
| 37 | |
| 38 N to N | |
| 39 | |
| 40 </help> | |
| 41 </tool> |