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comparison optdoe.xml @ 1:635ec9d1326f draft default tip

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/optdoe commit 381e8b82419e6002c74849cc37f924bc8296b0b1
author iuc
date Fri, 10 Feb 2023 15:04:42 +0000
parents 8791140662dc
children
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0:8791140662dc 1:635ec9d1326f
1 <tool id="optdoe" name="Optimal Design of Experiment" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="21.09"> 1 <tool id="optdoe" name="Optimal Design of Experiment" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="21.09">
2 <description>Combine selected genetic parts and enzyme variants for the desired pathways</description> 2 <description>Combine selected genetic parts and enzyme variants for the desired pathways</description>
3 <macros> 3 <macros>
4 <token name="@VERSION_SUFFIX@">0</token> 4 <token name="@VERSION_SUFFIX@">0</token>
5 <token name="@TOOL_VERSION@">2.0.2</token> 5 <token name="@TOOL_VERSION@">v2.0.2</token>
6 </macros> 6 </macros>
7 <requirements> 7 <requirements>
8 <requirement type="package" version="@TOOL_VERSION@">doebase</requirement> 8 <requirement type="package" version="@TOOL_VERSION@">doebase</requirement>
9 </requirements> 9 </requirements>
10 <command detect_errors="exit_code"><![CDATA[ 10 <command detect_errors="exit_code"><![CDATA[
169 169
170 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. 170 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.
171 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. 171 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.
172 The resulting design is provided as an SBOL collection containing the definition of each DNA component and the combinatorial library of constructs. 172 The resulting design is provided as an SBOL collection containing the definition of each DNA component and the combinatorial library of constructs.
173 173
174 .. image:: https://raw.githubusercontent.com/brsynth/synbiocad-galaxy-wrappers/master/OptDoE/img/image3.png 174 .. image:: https://raw.githubusercontent.com/brsynth/synbiocad-galaxy-wrappers/master/optdoe/img/image3.png
175 :width: 80 % 175 :width: 80 %
176 :align: center 176 :align: center
177 177
178 178
179 .. image:: https://raw.githubusercontent.com/brsynth/synbiocad-galaxy-wrappers/master/OptDoE/img/image46.png 179 .. image:: https://raw.githubusercontent.com/brsynth/synbiocad-galaxy-wrappers/master/optdoe/img/image46.png
180 :width: 80 % 180 :width: 80 %
181 :align: center 181 :align: center
182 182
183 | 183 |
184 184
241 --------------- 241 ---------------
242 242
243 * Joan Hérisson 243 * Joan Hérisson
244 * Thomas Duigou 244 * Thomas Duigou
245 ]]></help> 245 ]]></help>
246 <creator> 246 <citations>
247 <person givenName="Pablo" familyName="Carbonell" email="pablo.carbonell@upv.es" identifier="https://orcid.org/0000-0002-0993-5625" /> 247 <citation type="bibtex">
248 </creator> 248 @unpublished{pablocarb
249 author = {Pablo Carbonell},
250 title = {{doebase}},
251 url = {https://github.com/pablocarb/doebase/},
252 }
253 </citation>
254 </citations>
249 </tool> 255 </tool>