comparison goenrichment.xml @ 1:5ace5c7d1a86 draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/goenrichment commit f88b350b77f77b559803a9bb8f9f1219950d0f9f

0:52964064db8a

        <param name="summarize" type="boolean" checked="true" truevalue="--summarize_output" falsevalue="" label="Summarize Output" help="Whether to produce a summarized list of GO terms or the full list of those that are statistically significant"/>
        <param name="singletons" type="boolean" checked="true" truevalue="--ignore_singletons" falsevalue="" label="Exclude Singletons" help="Whether to exclude GO terms that are annotated to a single gene product in the study set"/>
        <param name="relations" type="boolean" checked="false" truevalue="--use_all_relations" falsevalue="" label="Use All Relations" help="Whether to infer annotations through 'part_of' and other non-hierarchical relationships, or only through 'is_a' relations"/>
    </inputs>
    <outputs>
        <data name="mf_result" format="tabular" label="MF Result File"/>
        <data name="bp_result" format="tabular" label="BP Result File"/>
        <data name="cc_result" format="tabular" label="CC Result File"/>
        <data name="mf_graph" format="png" label="MF Graph File">
            <change_format>
                <when input="graph" value="svg" format="svg"/>
                <when input="graph" value="tabular" format="tabular"/>
            </change_format>
        </data>
        <data name="bp_graph" format="png" label="BP Graph File">
            <change_format>
                <when input="graph" value="svg" format="svg"/>
                <when input="graph" value="tabular" format="tabular"/>
            </change_format>
        </data>
        <data name="cc_graph" format="png" label="CC Graph File">
            <change_format>
                <when input="graph" value="svg" format="svg"/>
                <when input="graph" value="tabular" format="tabular"/>
            </change_format>
        </data>

1:5ace5c7d1a86

        <param name="summarize" type="boolean" checked="true" truevalue="--summarize_output" falsevalue="" label="Summarize Output" help="Whether to produce a summarized list of GO terms or the full list of those that are statistically significant"/>
        <param name="singletons" type="boolean" checked="true" truevalue="--ignore_singletons" falsevalue="" label="Exclude Singletons" help="Whether to exclude GO terms that are annotated to a single gene product in the study set"/>
        <param name="relations" type="boolean" checked="false" truevalue="--use_all_relations" falsevalue="" label="Use All Relations" help="Whether to infer annotations through 'part_of' and other non-hierarchical relationships, or only through 'is_a' relations"/>
    </inputs>
    <outputs>
        <data name="mf_result" format="tabular" label="${tool.name} on ${study.name} MF Result File"/>
        <data name="bp_result" format="tabular" label="${tool.name} on ${study.name} BP Result File"/>
        <data name="cc_result" format="tabular" label="${tool.name} on ${study.name} CC Result File"/>
        <data name="mf_graph" format="png" label="${tool.name} on ${study.name} MF Graph File">
            <change_format>
                <when input="graph" value="svg" format="svg"/>
                <when input="graph" value="tabular" format="tabular"/>
            </change_format>
        </data>
        <data name="bp_graph" format="png" label="${tool.name} on ${study.name} BP Graph File">
            <change_format>
                <when input="graph" value="svg" format="svg"/>
                <when input="graph" value="tabular" format="tabular"/>
            </change_format>
        </data>
        <data name="cc_graph" format="png" label="${tool.name} on ${study.name} CC Graph File">
            <change_format>
                <when input="graph" value="svg" format="svg"/>
                <when input="graph" value="tabular" format="tabular"/>
            </change_format>
        </data>