Mercurial > repos > galaxyp > openms_omssaadapter

comparison OMSSAAdapter.xml @ 1:62795cdea5ea 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 12:17:02 +0000
parents f91e7d51c17f
children 886991df53f7
comparison
equal deleted inserted replaced
0:f91e7d51c17f 1:62795cdea5ea
5289 <option value="ZGB (N-term)">ZGB (N-term)</option> 5289 <option value="ZGB (N-term)">ZGB (N-term)</option>
5290 <expand macro="list_string_san"/> 5290 <expand macro="list_string_san"/>
5291 </param> 5291 </param>
5292 <param name="v" argument="-v" type="integer" optional="true" value="1" label="number of missed cleavages allowed" help=""/> 5292 <param name="v" argument="-v" type="integer" optional="true" value="1" label="number of missed cleavages allowed" help=""/>
5293 <param name="enzyme" argument="-enzyme" type="select" optional="false" label="The enzyme used for peptide digestion" help=""> 5293 <param name="enzyme" argument="-enzyme" type="select" optional="false" label="The enzyme used for peptide digestion" help="">
5294 <option value="Trypsin" selected="true">Trypsin</option>
5295 <option value="Trypsin/P">Trypsin/P</option>
5296 <option value="Asp-N_ambic">Asp-N_ambic</option>
5297 <option value="Chymotrypsin">Chymotrypsin</option>
5298 <option value="CNBr">CNBr</option>
5294 <option value="Lys-C/P">Lys-C/P</option> 5299 <option value="Lys-C/P">Lys-C/P</option>
5295 <option value="Trypsin" selected="true">Trypsin</option> 5300 <option value="no cleavage">no cleavage</option>
5301 <option value="unspecific cleavage">unspecific cleavage</option>
5296 <option value="PepsinA">PepsinA</option> 5302 <option value="PepsinA">PepsinA</option>
5297 <option value="TrypChymo">TrypChymo</option> 5303 <option value="TrypChymo">TrypChymo</option>
5298 <option value="Trypsin/P">Trypsin/P</option>
5299 <option value="glutamyl endopeptidase">glutamyl endopeptidase</option> 5304 <option value="glutamyl endopeptidase">glutamyl endopeptidase</option>
5305 <option value="Asp-N">Asp-N</option>
5300 <option value="Formic_acid">Formic_acid</option> 5306 <option value="Formic_acid">Formic_acid</option>
5301 <option value="Lys-C">Lys-C</option> 5307 <option value="Lys-C">Lys-C</option>
5302 <option value="Asp-N_ambic">Asp-N_ambic</option>
5303 <option value="Chymotrypsin">Chymotrypsin</option>
5304 <option value="no cleavage">no cleavage</option>
5305 <option value="unspecific cleavage">unspecific cleavage</option>
5306 <option value="Asp-N">Asp-N</option>
5307 <option value="CNBr">CNBr</option>
5308 <option value="Arg-C">Arg-C</option> 5308 <option value="Arg-C">Arg-C</option>
5309 <expand macro="list_string_san"/> 5309 <expand macro="list_string_san"/>
5310 </param> 5310 </param>
5311 <param name="hl" argument="-hl" type="integer" optional="true" value="30" label="maximum number of hits retained for one spectrum" help="Note: even when set to 1 OMSSA may report multiple hits with different charge states"/> 5311 <param name="hl" argument="-hl" type="integer" optional="true" value="30" label="maximum number of hits retained for one spectrum" help="Note: even when set to 1 OMSSA may report multiple hits with different charge states"/>
5312 <param name="he" argument="-he" type="float" optional="true" value="1000.0" label="the maximum e-value allowed in the hit list" help="If you set this parameter too small (e.g., he=1), this will effectively introduce FDR filtering. Thus, allowing a less stringent FDR during post-processing will nevertheless return the (better) FDR introduced here, since mediocre hits are not even reported"/> 5312 <param name="he" argument="-he" type="float" optional="true" value="1000.0" label="the maximum e-value allowed in the hit list" help="If you set this parameter too small (e.g., he=1), this will effectively introduce FDR filtering. Thus, allowing a less stringent FDR during post-processing will nevertheless return the (better) FDR introduced here, since mediocre hits are not even reported"/>