| Next changeset 1:ac61067a0852 (2015-02-10) |
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Commit message:
Uploaded |
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added:
fastaptamer_search_1.xml |
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| diff -r 000000000000 -r 8603505f43c5 fastaptamer_search_1.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/fastaptamer_search_1.xml Tue Feb 10 14:50:45 2015 -0500 |
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| @@ -0,0 +1,60 @@ +<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> |