/tools/filters/CreateInterval.xml
https://bitbucket.org/h_morita_dbcls/galaxy-central · XML · 56 lines · 44 code · 12 blank · 0 comment · 0 complexity · f069df1b031eca3b8e85e63e6eccfa7c MD5 · raw file
- <tool id="createInterval" name="Create single interval">
- <description>as a new query</description>
- <command interpreter="perl">CreateInterval.pl $chrom $start $end "$name" $strand $out_file1</command>
- <inputs>
- <param name="chrom" size="20" type="text" value="chr7" label="Chromosome"/>
- <param name="start" size="20" type="integer" value="100" label="Start position"/>
- <param name="end" size="20" type="integer" value="1000" label="End position"/>
- <param name="name" size="20" type="text" value="myInterval" label="Name"/>
- <param name="strand" type="select" label="Strand" help="If your interval is strandless set strand to plus" >
- <option value="plus">plus</option>
- <option value="minus">minus</option>
- </param>
- </inputs>
- <outputs>
- <data format="bed" name="out_file1" />
- </outputs>
- <tests>
- <test>
- <param name="chrom" value="chr7"/>
- <param name="start" value="100"/>
- <param name="end" value="1000"/>
- <param name="name" value="myinterval"/>
- <param name="strand" value="plus"/>
- <output name="out_file1" file="eq-createinterval.dat"/>
- </test>
- </tests>
- <help>
- .. class:: warningmark
- **TIP**. Once your interval appears in history, you must tell Galaxy which genome it belongs to by clicking pencil icon or the "?" link in the history item.
- -----
- **What it does**
- This tool allows you to create a single genomic interval. The resulting history item will be in the BED format.
- -----
- **Example**
- Typing the following values in the form::
- Chromosome: chrX
- Start position: 151087187
- End position: 151370486
- Name: NM_000808
- Strand: minus
- will create a single interval::
- chrX 151087187 151370486 NM_000808 0 -
- </help>
- </tool>