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author xuebing
date Tue, 13 Mar 2012 19:05:10 -0400
parents 292186c14b08
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13:292186c14b08 14:76e1b1b21cce
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>