Mercurial > repos > galaxyp > openms_openpepxllf

comparison OpenPepXLLF.xml @ 5:a8c028751a74 draft

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"planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit 6e8b69ee3aff3c93f745a5de11cc9169130f2e5e"
author galaxyp
date Thu, 24 Sep 2020 12:26:46 +0000
parents 04168c0bdfa7
children e574d3f268f6
comparison
equal deleted inserted replaced
4:04168c0bdfa7 5:a8c028751a74
5364 <section name="peptide" title="Settings for digesting proteins into peptides" help="" expanded="false"> 5364 <section name="peptide" title="Settings for digesting proteins into peptides" help="" expanded="false">
5365 <param name="min_size" argument="-peptide:min_size" type="integer" optional="true" value="5" label="Minimum size a peptide must have after digestion to be considered in the search" help=""/> 5365 <param name="min_size" argument="-peptide:min_size" type="integer" optional="true" value="5" label="Minimum size a peptide must have after digestion to be considered in the search" help=""/>
5366 <param name="missed_cleavages" argument="-peptide:missed_cleavages" type="integer" optional="true" value="2" label="Number of missed cleavages" help=""/> 5366 <param name="missed_cleavages" argument="-peptide:missed_cleavages" type="integer" optional="true" value="2" label="Number of missed cleavages" help=""/>
5367 <param name="enzyme" argument="-peptide:enzyme" type="select" optional="false" label="The enzyme used for peptide digestion" help=""> 5367 <param name="enzyme" argument="-peptide:enzyme" type="select" optional="false" label="The enzyme used for peptide digestion" help="">
5368 <option value="Trypsin" selected="true">Trypsin</option> 5368 <option value="Trypsin" selected="true">Trypsin</option>
5369 <option value="Chymotrypsin">Chymotrypsin</option>
5370 <option value="Chymotrypsin/P">Chymotrypsin/P</option>
5371 <option value="CNBr">CNBr</option>
5372 <option value="Formic_acid">Formic_acid</option>
5373 <option value="Asp-N">Asp-N</option>
5374 <option value="Lys-C">Lys-C</option>
5375 <option value="Lys-N">Lys-N</option>
5376 <option value="Lys-C/P">Lys-C/P</option>
5377 <option value="Arg-C/P">Arg-C/P</option>
5378 <option value="Arg-C">Arg-C</option>
5379 <option value="Alpha-lytic protease">Alpha-lytic protease</option>
5380 <option value="2-iodobenzoate">2-iodobenzoate</option>
5381 <option value="iodosobenzoate">iodosobenzoate</option>
5382 <option value="staphylococcal protease/D">staphylococcal protease/D</option>
5383 <option value="proline-endopeptidase/HKR">proline-endopeptidase/HKR</option> 5369 <option value="proline-endopeptidase/HKR">proline-endopeptidase/HKR</option>
5384 <option value="Glu-C+P">Glu-C+P</option> 5370 <option value="Glu-C+P">Glu-C+P</option>
5385 <option value="PepsinA + P">PepsinA + P</option> 5371 <option value="PepsinA + P">PepsinA + P</option>
5386 <option value="cyanogen-bromide">cyanogen-bromide</option> 5372 <option value="cyanogen-bromide">cyanogen-bromide</option>
5387 <option value="Clostripain/P">Clostripain/P</option> 5373 <option value="Clostripain/P">Clostripain/P</option>
5388 <option value="elastase-trypsin-chymotrypsin">elastase-trypsin-chymotrypsin</option> 5374 <option value="elastase-trypsin-chymotrypsin">elastase-trypsin-chymotrypsin</option>
5389 <option value="no cleavage">no cleavage</option> 5375 <option value="no cleavage">no cleavage</option>
5390 <option value="unspecific cleavage">unspecific cleavage</option> 5376 <option value="unspecific cleavage">unspecific cleavage</option>
5377 <option value="Asp-N/B">Asp-N/B</option>
5378 <option value="Asp-N_ambic">Asp-N_ambic</option>
5379 <option value="Chymotrypsin">Chymotrypsin</option>
5380 <option value="Chymotrypsin/P">Chymotrypsin/P</option>
5381 <option value="CNBr">CNBr</option>
5382 <option value="Formic_acid">Formic_acid</option>
5383 <option value="Lys-C">Lys-C</option>
5384 <option value="Asp-N">Asp-N</option>
5391 <option value="PepsinA">PepsinA</option> 5385 <option value="PepsinA">PepsinA</option>
5392 <option value="TrypChymo">TrypChymo</option> 5386 <option value="TrypChymo">TrypChymo</option>
5393 <option value="Trypsin/P">Trypsin/P</option> 5387 <option value="Trypsin/P">Trypsin/P</option>
5388 <option value="Arg-C/P">Arg-C/P</option>
5389 <option value="Arg-C">Arg-C</option>
5394 <option value="V8-DE">V8-DE</option> 5390 <option value="V8-DE">V8-DE</option>
5395 <option value="V8-E">V8-E</option> 5391 <option value="V8-E">V8-E</option>
5396 <option value="leukocyte elastase">leukocyte elastase</option> 5392 <option value="leukocyte elastase">leukocyte elastase</option>
5397 <option value="proline endopeptidase">proline endopeptidase</option> 5393 <option value="proline endopeptidase">proline endopeptidase</option>
5398 <option value="glutamyl endopeptidase">glutamyl endopeptidase</option> 5394 <option value="glutamyl endopeptidase">glutamyl endopeptidase</option>
5399 <option value="Asp-N/B">Asp-N/B</option> 5395 <option value="Alpha-lytic protease">Alpha-lytic protease</option>
5400 <option value="Asp-N_ambic">Asp-N_ambic</option> 5396 <option value="2-iodobenzoate">2-iodobenzoate</option>
5397 <option value="iodosobenzoate">iodosobenzoate</option>
5398 <option value="staphylococcal protease/D">staphylococcal protease/D</option>
5399 <option value="Lys-N">Lys-N</option>
5400 <option value="Lys-C/P">Lys-C/P</option>
5401 <expand macro="list_string_san"/> 5401 <expand macro="list_string_san"/>
5402 </param> 5402 </param>
5403 </section> 5403 </section>
5404 <section name="cross_linker" title="Description of the cross-linker reagent" help="" expanded="false"> 5404 <section name="cross_linker" title="Description of the cross-linker reagent" help="" expanded="false">
5405 <param name="residue1" argument="-cross_linker:residue1" type="text" optional="true" value="K N-term" label="Comma separated residues, that the first side of a bifunctional cross-linker can attach to" help=" (space separated list, in order to allow for spaces in list items surround them by single quotes)"> 5405 <param name="residue1" argument="-cross_linker:residue1" type="text" optional="true" value="K N-term" label="Comma separated residues, that the first side of a bifunctional cross-linker can attach to" help=" (space separated list, in order to allow for spaces in list items surround them by single quotes)">