view tools/myTools/10_internal_control_node_analysis.xml @ 1:7e5c71b2e71f draft default tip

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<tool id="netisce10" name="Netisce Step 10" version="0.1.0" python_template_version="3.5">
<description>Extracts the steady-state values of internal-marker nodes in the attractors from perturbations whose  attractors passed filtering criterion 1</description>

    <requirements>
        <requirement type="package" version="1.1.5">pandas</requirement>
        <requirement type="package" version="3.5.0">sys</requirement>
    </requirements>
    
    <command> python3 '$__tool_directory__/bin/get_RONs_getperts.py' '$pert_attrs' '$icn' '$crit_perts'</command>

    <inputs>
        <param name="pert_attrs" type="data" format="txt" label="Perturbation Attractors"/>
        <param name="crit_perts" type="data" format="txt" label="Perturbation Attractors that shifted to a different state/cluster"/>
        <param name="icn" type="data" format="txt" label="Internal Control Nodes"/>
    </inputs>

    <outputs>
        <data name="output" format="txt" from_work_dir="internal_markers.txt" label="internal-marker nodes in attracotrs from perturbations that passed criterion 1"/>
    </outputs>

    <tests>
        <test>
            <param name="icn" value="internal_control.txt"/>
            <param name="pert_attrs" value="pert_logss.txt"/>
            <param name="crit_perts" value="crit1perts.txt"/>
            <output name="output" value="internal_markers.txt" ftype="txt"/>
        </test>
    </tests>

    <help>
    This tool extracts the steady-state values of internal-marker nodes in the attractors from perturbations whose  attractors passed filtering criterion 1.
    Required Inputs:
    1. Perturbation Attractors 
    2. Perturbation Attractors IDs that shifted to a different state/cluster
    3. Internal Control Nodes
    </help>

</tool>