view waveica_macros.xml @ 4:8b55efc7d117 draft

"planemo upload for repository https://github.com/RECETOX/galaxytools/tree/master/tools/waveica commit aa8206a01efc1813f2586584782f28a73a17fe86"

<macros>
    <token name="@TOOL_VERSION@">0.2.0</token>

    <xml name="creator">
        <creator>
            <organization
                url="https://www.recetox.muni.cz"
                name="RECETOX MUNI" />
        </creator>
    </xml>
    <xml name="general_parameters">
        <param type="data" name="data" label="Feature table" format="csv" help=""/>
        <param type="integer" value="20" name="k" label="Number of components to decompose" help="maximal component that ICA decomposes"/>
        <param type="float" value="0" name="alpha" label="Alpha" help="trade-off value between the independence of samples (temporal ICA) and variables (spatial ICA), should be between 0 and 1"/>
    </xml>
    <xml name="batchwise_parameters">
        <param type="float" value="0.05" name="t" label="Batch-association threshold" help="threshold to consider a component associate with the batch,
        should be between 0 and 1"/>
        <param type="float" value="0.05" name="t2" label="Group-association threshold" help="threshold to consider a component associate with the group,
        should be between 0 and 1"/>
    </xml>
    <xml name="singlebatch_parameters">
        <param type="float" value="0" name="cutoff" label="Cutoff" help="threshold of the variation explained by the injection order for independent components, should be between 0 and 1"/>
    </xml>
    <xml name="exclude_blanks">
        <param name="exclude_blanks" type="boolean" checked="false" truevalue="TRUE" falsevalue="FALSE" label="Remove blanks" help="Excludes blank samples from the output" />
    </xml>
    <xml name="wf">
        <conditional name="wf">
            <param type="select" name="wavelet_filter" label="Wavelet transform filter" help="wavelet function and filter length [1] (see footnotes for more details)">
                <option value="d" selected="True">Daubechies</option>
                <option value="la" >Least Asymetric</option>
                <option value="bl" >Best Localized</option>
                <option value="c" >Coiflet</option>
            </param>
            <when value="d">
                <param name="wavelet_length" type="select" label="filter length">
                    <option value="2" selected="True">2</option>
                    <option value="4">4</option>
                    <option value="6">6</option>
                    <option value="8">8</option>
                    <option value="10">10</option>
                    <option value="12">12</option>
                    <option value="14">14</option>
                    <option value="16">16</option>
                    <option value="18">18</option>
                    <option value="20">20</option>
                </param>
            </when>
            <when value="la">
                <param name="wavelet_length" type="select" label="filter length">
                    <option value="8">8</option>
                    <option value="10">10</option>
                    <option value="12">12</option>
                    <option value="14">14</option>
                    <option value="16">16</option>
                    <option value="18">18</option>
                    <option value="20">20</option>
                </param>
            </when>
            <when value="bl">
                <param name="wavelet_length" type="select" label="filter length">
                    <option value="14">14</option>
                    <option value="18">18</option>
                    <option value="20">20</option>
                </param>
            </when>
            <when value="c">
                <param name="wavelet_length" type="select" label="filter length">
                    <option value="6">6</option>
                    <option value="12">12</option>
                    <option value="18">18</option>
                    <option value="24">24</option>
                    <option value="30">30</option>
                </param>
            </when>
        </conditional>
    </xml>

    <xml name="outputs">
        <outputs>
            <data name="normalized_data" format="tsv" />
        </outputs>
    </xml>
</macros>