Mercurial > repos > metexplore > met4j_chokepoint

comparison ChokePoint.xml @ 3:44a268f73da5 draft default tip

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planemo upload for repository https://forge.inrae.fr/metexplore/met4j-galaxy commit e757d0398a8407d983f1ef3f900b31cafc26e170
author metexplore
date Wed, 21 Jan 2026 15:28:25 +0000
parents 68a26768d2a5
children
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2:d8bd2b838d9e 3:44a268f73da5
13 <param argument="-i" format="sbml" label="input SBML file" name="inputPath" optional="false" type="data" value=""/> 13 <param argument="-i" format="sbml" label="input SBML file" name="inputPath" optional="false" type="data" value=""/>
14 </inputs> 14 </inputs>
15 <outputs> 15 <outputs>
16 <data format="tsv" name="outputPath"/> 16 <data format="tsv" name="outputPath"/>
17 </outputs> 17 </outputs>
18 <tests> 18 <tests/>
19 <test>
20 <param name="inputPath" value="XF_network.sbml"/>
21 <output ftype="tsv" name="outputPath">
22 <assert_contents>
23 <has_n_lines n="695"/>
24 <has_n_columns n="3"/>
25 <has_line_matching expression="R_ADEtex.*adenine_transport_via_diffusion__extracellular_to_periplasm_.*M_ade_e &lt;==&gt; M_ade_p" n="1"/>
26 <has_line_matching expression="R_AGDC_r.*R_AGDC_r.*M_acgam6p_c \+ M_h2o_c --&gt; M_ac_c \+ M_gam6p_c" n="1"/>
27 </assert_contents>
28 </output>
29 </test>
30 </tests>
31 <help><![CDATA[Compute the Choke points of a metabolic network. 19 <help><![CDATA[Compute the Choke points of a metabolic network.
32 Choke points are reactions that are required to consume or produce one compound. Targeting of choke point can lead to the accumulation or the loss of some metabolites, thus choke points constitute an indicator of lethality and can help identifying drug target. 20 Choke points are reactions that are required to consume or produce one compound. Targeting of choke point can lead to the accumulation or the loss of some metabolites, thus choke points constitute an indicator of lethality and can help identifying drug target.
33 @ATTRIBUTION@]]></help> 21 @ATTRIBUTION@]]></help>
34 <citations> 22 <citations>
35 <citation type="doi">10.1093/bioinformatics/btl181</citation> 23 <citation type="doi">10.1093/bioinformatics/btl181</citation>