comparison optdoe.xml @ 1:9a2fb8d83eb0 draft default tip

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/optdoe commit 381e8b82419e6002c74849cc37f924bc8296b0b1

0:4f1acbf17618

<tool id="optdoe" name="Optimal Design of Experiment" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="21.09">
    <description>Combine selected genetic parts and enzyme variants for the desired pathways</description>
    <macros>
        <token name="@VERSION_SUFFIX@">0</token>
        <token name="@TOOL_VERSION@">2.0.2</token>
    </macros>
    <requirements>
        <requirement type="package" version="@TOOL_VERSION@">doebase</requirement>
    </requirements>
    <command detect_errors="exit_code"><![CDATA[

Where n is the number of experimental runs or library size, p is the number of independent variables, and X is the model matrix, i.e., a row for each experimental run and a column for each term in the model. The library size n can be selected and should be above a minimal threshold depending on the number of combinatorial complexity of the library.
The experimental design can be evaluated through the provided diagnostics for D-efficiency, power analysis, and relative prediction variance, allowing the optimal selection of library size.
The resulting design is provided as an SBOL collection containing the definition of each DNA component and the combinatorial library of constructs.

.. image:: https://raw.githubusercontent.com/brsynth/synbiocad-galaxy-wrappers/master/OptDoE/img/image3.png
	:width: 80 %
	:align: center


.. image:: https://raw.githubusercontent.com/brsynth/synbiocad-galaxy-wrappers/master/OptDoE/img/image46.png
	:width: 80 %
	:align: center

|

---------------

* Joan Hérisson
* Thomas Duigou
    ]]></help>
    <creator>
        <person givenName="Pablo" familyName="Carbonell" email="[e-mail]" identifier="https://orcid.org/0000-0002-0993-5625" />
    </creator>
</tool>

1:9a2fb8d83eb0

<tool id="optdoe" name="Optimal Design of Experiment" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="21.09">
    <description>Combine selected genetic parts and enzyme variants for the desired pathways</description>
    <macros>
        <token name="@VERSION_SUFFIX@">0</token>
        <token name="@TOOL_VERSION@">v2.0.2</token>
    </macros>
    <requirements>
        <requirement type="package" version="@TOOL_VERSION@">doebase</requirement>
    </requirements>
    <command detect_errors="exit_code"><![CDATA[

Where n is the number of experimental runs or library size, p is the number of independent variables, and X is the model matrix, i.e., a row for each experimental run and a column for each term in the model. The library size n can be selected and should be above a minimal threshold depending on the number of combinatorial complexity of the library.
The experimental design can be evaluated through the provided diagnostics for D-efficiency, power analysis, and relative prediction variance, allowing the optimal selection of library size.
The resulting design is provided as an SBOL collection containing the definition of each DNA component and the combinatorial library of constructs.

.. image:: https://raw.githubusercontent.com/brsynth/synbiocad-galaxy-wrappers/master/optdoe/img/image3.png
	:width: 80 %
	:align: center


.. image:: https://raw.githubusercontent.com/brsynth/synbiocad-galaxy-wrappers/master/optdoe/img/image46.png
	:width: 80 %
	:align: center

|

---------------

* Joan Hérisson
* Thomas Duigou
    ]]></help>
    <citations>
        <citation type="bibtex">
        @unpublished{pablocarb
            author = {Pablo Carbonell},
            title = {{doebase}},
            url = {https://github.com/pablocarb/doebase/},
        }
        </citation>
    </citations>
</tool>