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comparison SMART/galaxy/Clusterize.xml @ 63:5f210bc9f486

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Added a simple test for Clusterize
author m-zytnicki
date Mon, 19 Oct 2015 12:02:29 +0200
parents 90f4b29d884f
children
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62:8c42a6d7ffd4 63:5f210bc9f486
49 49
50 <outputs> 50 <outputs>
51 <data name="outputFileGff" format="gff3"/> 51 <data name="outputFileGff" format="gff3"/>
52 </outputs> 52 </outputs>
53 53
54 <tests>
55 <test>
56 <!-- basic test -->
57 <param name="FormatInputFileName" value="bed"/>
58 <param name="inputFileName" value="smart_1.bed" ftype="bed"/>
59 <param name="colinear" value="false"/>
60 <param name="normalize" value="false"/>
61 <param name="distance" value="0"/>
62 <output name="output" file="smart_clusterize_out_1.gff3" ftype="gff3"/>
63 </test>
64 </tests>
65
54 <help> 66 <help>
55 The script clusterizes the input genomic data. Two features are clusterized when their genomic intervals overlap. The output is a GFF3 file, where each element is a cluster. The number of elements in the cluster is given by the tag **nbElements**. The name of a cluster is the concatation of the names of its reads (like **read1--read2--read3**). Note that if the size of the name of the cluster exceeds 100 characters, it is truncated to the first 100 characters. 67 The script clusterizes the input genomic data. Two features are clusterized when their genomic intervals overlap. The output is a GFF3 file, where each element is a cluster. The number of elements in the cluster is given by the tag **nbElements**. The name of a cluster is the concatation of the names of its reads (like **read1--read2--read3**). Note that if the size of the name of the cluster exceeds 100 characters, it is truncated to the first 100 characters.
56 68
57 Some options may clusterize the features which are closer than a given distance. 69 Some options may clusterize the features which are closer than a given distance.
58 70