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tools/interactive/interactivetool_cellxgene_mouse_sciatic_nerve.xml
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| <tool id="interactive_tool_cellxgene_mouse_sciatic_nerve" tool_type="interactive" name="Interactive Mouse Sciatic Nerve CellxGene Environment" version="0.0.1"> | ||
| <requirements> | ||
| <container type="docker">quay.io/bgruening/cellxgene-mouse-sciatic-nerve:1.1.1-1</container> | ||
| </requirements> | ||
| <entry_points> | ||
| <entry_point name="CellxGene Single Cell Visualisation on sciatic verves data (complete)" requires_domain="True"> | ||
| <port>8080</port> | ||
| </entry_point> | ||
| <entry_point name="CellxGene Single Cell Visualisation on sciatic verves data (adipocytes)" requires_domain="True"> | ||
| <port>8081</port> | ||
| </entry_point> | ||
| <entry_point name="CellxGene Single Cell Visualisation on sciatic verves data (macrophages)" requires_domain="True"> | ||
| <port>8082</port> | ||
| </entry_point> | ||
| </entry_points> | ||
| <stdio> | ||
| <regex match="WARNING" | ||
| source="both" | ||
| level="warning" | ||
| description="cellxgene warnings" | ||
| /> | ||
| </stdio> | ||
| <command><![CDATA[ | ||
| docker run -d | ||
| #if $data == "all": | ||
| -p 8080:8080 | ||
| #if $data == "adipo": | ||
| -p 8081:8081 | ||
| #else | ||
| -p 8082:8082 | ||
| #end if | ||
| quay.io/bgruening/cellxgene-mouse-sciatic-nerve:1.1.1-1 | ||
| ]]> | ||
| </command> | ||
| <inputs> | ||
| <param name="data" type="select" label="dataset" help="Please select the dataset to visualise"> | ||
| <option value="all">Complete dataset</option> | ||
| <option value="adipo">Adipocytes (2nd layer clustering)</option> | ||
| <option value="macro">Macrophages (2nd layer clustering)</option> | ||
| </param> | ||
| </inputs> | ||
| <outputs> | ||
| </outputs> | ||
| <tests> | ||
| </tests> | ||
| <help><![CDATA[ | ||
| This tool provides an interactive environment to visualise single cell RNA-seq data from mouse sciatic nerve. The data is clustered into 2nd layer clusters, which can be visualised separately. The complete dataset can also be visualised. The tool provides a web interface to interact with the data. | ||
| ]]></help> | ||
| </tool> |