Mercurial > repos > fastaptamer > fastaptamer_search
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author | fastaptamer |
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date | Tue, 10 Feb 2015 14:51:07 -0500 |
parents | 8603505f43c5 |
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<tool id="fastaptamer_search_1_0_2" name="FASTAptamer-Search" version="1.0.2"> <description>Degenerate motif searching</description> <version_command>fastaptamer_search -v</version_command> <command interpreter="perl">fastaptamer_search -i $input -o $output -p $pattern </command> <inputs> <param name="input" type="data" format="fasta" label="Input file" ></param> <param name="pattern" type="text" label="Pattern to search for"></param> </inputs> <outputs> <data name="output" format="fasta" label="FASTAptamer-Search output file"></data> </outputs> <help> **FASTAptamer-Search** searches for degenerate nucleotide motifs within a sequence file. Patterns and input sequence data are case insensitive, and T/U are interchangeable. In addition to single bases, patterns can include any of the degenerate base symbols from IUPAC-IUBMB nucleic acid notation: :: A/T/G/C/U single bases R puRines (A/G) Y pYrimidines (C/T) W Weak (A/T) S Strong (G/C) M aMino (A/C) K Keto (G/T) B not A D not C H not G V not T N aNy base (not a gap) ------ .. image:: http://burkelab.missouri.edu/images/fastaptamer-logo-xs.png :height: 98 :width: 300 For more information on FASTAptamer, visit our website_. FASTAptamer is distributed under a GNU GPL v3.0 license. For complete license click here_. .. _here: http://burkelab.missouri.edu/fastaptamer/LICENSE.txt .. _website: http://burkelab.missouri.edu/fastaptamer.html </help> <citations> <citation type="doi">doi:10.1038/mtna.2015.4</citation> </citations> </tool>