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1 <tool id="rnaz" name="RNAz" version="0.1.0">
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2 <description></description>
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3 <requirements>
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4 <requirement type="package" version="2.1">rnaz</requirement>
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5 </requirements>
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6 <command>
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7 RNAz $inputaln > $outfile
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8 </command>
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9 <stdio>
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10 <exit_code range="1:" level="fatal" description="Error occurred. Please check Tool Standard Error" />
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11 <exit_code range=":-1" level="fatal" description="Error occurred. Please check Tool Standard Error" />
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12 </stdio>
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13 <inputs>
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14 <param format="aln" name="inputaln" type="data" label="Input Alignment File" />
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15 </inputs>
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16 <outputs>
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17 <data name="outfile" format="txt" />
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18 </outputs>
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19 <help>**What it does**
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20 RNAz is a program for predicting structurally conserved and thermodynamically stable RNA secondary structures in multiple sequence alignments. It can be used in genome wide screens to detect functional RNA structures, as found in noncoding RNAs and cis-acting regulatory elements of mRNAs.
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21
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22 Gruber AR, Findeiss, Washietl S, Hofacker IL, and Stadler PF.
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23 RNAz 2.0: Improved noncoding rna detection.
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24 Pac Symp Biocomput, 2010. 15:69–79.
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25 </help>
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26 </tool>
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