Mercurial > repos > galaxyp > openms_mapaligneridentification

annotate test-data/SequenceCoverageCalculator.idXML @ 2:1f0a9c3cb526 draft

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planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
author galaxyp
date Fri, 17 May 2019 05:04:47 -0400
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2
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
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1 <?xml version="1.0" encoding="UTF-8"?>
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2 <?xml-stylesheet type="text/xsl" href="https://www.openms.de/xml-stylesheet/IdXML.xsl" ?>
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3 <IdXML version="1.5" xsi:noNamespaceSchemaLocation="https://www.openms.de/xml-schema/IdXML_1_5.xsd" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance">
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4 <SearchParameters id="SP_0" db="/home/eugen/Development/OpenMS/src/tests/topp/OpenPepXL_input.fasta" db_version="" taxonomy="" mass_type="monoisotopic" charges="3,4,5,6,7" enzyme="trypsin" missed_cleavages="2" precursor_peak_tolerance="10" precursor_peak_tolerance_ppm="true" peak_mass_tolerance="0.2" peak_mass_tolerance_ppm="false" >
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5 <UserParam type="string" name="input_consensusXML" value="/home/eugen/Development/OpenMS/src/tests/topp/OpenPepXL_input.consensusXML"/>
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6 <UserParam type="string" name="input_mzML" value="/home/eugen/Development/OpenMS/src/tests/topp/OpenPepXL_input.mzML"/>
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7 <UserParam type="string" name="input_decoys" value=""/>
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8 <UserParam type="int" name="decoy_prefix" value="0"/>
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9 <UserParam type="string" name="decoy_string" value="decoy"/>
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10 <UserParam type="string" name="out_xquest_specxml" value="OpenPepXL_output.spec.xml.tmp"/>
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11 <UserParam type="int" name="precursor:min_charge" value="3"/>
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12 <UserParam type="int" name="precursor:max_charge" value="7"/>
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13 <UserParam type="float" name="fragment:mass_tolerance_xlinks" value="0.3"/>
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14 <UserParam type="int" name="peptide:min_size" value="5"/>
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15 <UserParam type="stringList" name="cross_link:residue1" value="[K]"/>
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16 <UserParam type="stringList" name="cross_link:residue2" value="[K]"/>
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17 <UserParam type="float" name="cross_link:mass" value="138.0680796"/>
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18 <UserParam type="float" name="cross_link:mass_isoshift" value="12.075321"/>
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19 <UserParam type="floatList" name="cross_link:mass_monolink" value="[156.07864431, 155.094628715]"/>
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20 <UserParam type="string" name="cross_link:name" value="DSS"/>
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21 <UserParam type="int" name="modifications:variable_max_per_peptide" value="2"/>
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22 <UserParam type="int" name="MS:1001029" value="329"/>
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23 </SearchParameters>
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24 <IdentificationRun date="2018-03-06T13:21:04" search_engine="OpenXQuest" search_engine_version="2.3.0" search_parameters_ref="SP_0" >
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25 <ProteinIdentification score_type="" higher_score_better="true" significance_threshold="0" >
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26 <ProteinHit id="PH_0" accession="Protein3" score="0" sequence="" >
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27 <UserParam type="string" name="target_decoy" value="target"/>
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28 </ProteinHit>
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29 <ProteinHit id="PH_1" accession="Protein2" score="0" sequence="" >
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30 <UserParam type="string" name="target_decoy" value="target"/>
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31 </ProteinHit>
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32 <ProteinHit id="PH_2" accession="Protein1" score="0" sequence="" >
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33 <UserParam type="string" name="target_decoy" value="target"/>
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34 </ProteinHit>
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35 <UserParam type="string" name="SpectrumIdentificationProtocol" value="MS:1002494"/>
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36 </ProteinIdentification>
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37 <PeptideIdentification score_type="OpenXQuest:combined score" higher_score_better="true" significance_threshold="0" MZ="728.411010742188" RT="2120.05249023438" spectrum_reference="spectrum=99,spectrum=48" >
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38 <PeptideHit score="0.936605209529642" sequence="LAAPQLVQMFIGDGAK(Xlink:DSS)LVR" charge="3" aa_before="K" aa_after="D" start="249" end="267" protein_refs="PH_1" >
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39 <UserParam type="string" name="fragment_annotation" value="1004.99096679688,0.334201395511627,2,&quot;[alpha|xi$b18]&quot;"/>
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40 <UserParam type="string" name="spectrum_reference" value="spectrum=99"/>
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41 <UserParam type="string" name="target_decoy" value="target"/>
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42 <UserParam type="int" name="spectrum_index" value="81"/>
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43 <UserParam type="float" name="xl_mass" value="156.07864431"/>
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44 <UserParam type="string" name="xl_chain" value="MS:1002509"/>
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45 <UserParam type="int" name="xl_pos" value="15"/>
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46 <UserParam type="string" name="xl_type" value="mono-link"/>
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47 <UserParam type="int" name="xl_rank" value="2"/>
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48 <UserParam type="string" name="xl_term_spec" value="ANYWHERE"/>
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49 <UserParam type="float" name="spec_heavy_RT" value="2099.09545898438"/>
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50 <UserParam type="float" name="spec_heavy_MZ" value="732.436096191406"/>
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51 <UserParam type="string" name="spectrum_reference_heavy" value="spectrum=48"/>
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52 <UserParam type="int" name="spectrum_index_heavy" value="39"/>
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53 <UserParam type="float" name="OMS:precursor_mz_error_ppm" value="-3.29631082786707"/>
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54 <UserParam type="float" name="OpenXQuest:xcorr xlink" value="0.000333623265276995"/>
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55 <UserParam type="float" name="OpenXQuest:xcorr common" value="-0.0259976562688046"/>
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56 <UserParam type="float" name="OpenXQuest:match-odds" value="0.00212489435959964"/>
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57 <UserParam type="float" name="OpenXQuest:intsum" value="0.334201395511627"/>
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58 <UserParam type="float" name="OpenXQuest:wTIC" value="0.0688459236181392"/>
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59 <UserParam type="float" name="OpenXQuest:TIC" value="0.0688459236181392"/>
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60 <UserParam type="float" name="OpenXQuest:prescore" value="0.00694444449618459"/>
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61 <UserParam type="float" name="OpenXQuest:log_occupancy" value="0.0564614974779924"/>
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62 <UserParam type="float" name="OpenXQuest:log_occupancy_alpha" value="0.0564614974779924"/>
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63 <UserParam type="float" name="OpenXQuest:log_occupancy_beta" value="0"/>
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64 <UserParam type="float" name="OpenXQuest:log_occupancy_full_spec" value="0.0231329371940407"/>
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65 <UserParam type="float" name="HyperCommon" value="0"/>
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66 <UserParam type="float" name="HyperXlink" value="0.288332907246581"/>
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67 <UserParam type="float" name="HyperAlpha" value="2.58943363761124"/>
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68 <UserParam type="float" name="HyperBeta" value="0"/>
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69 <UserParam type="float" name="HyperBoth" value="2.58943363761124"/>
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70 <UserParam type="int" name="matched_xlink_alpha" value="1"/>
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71 <UserParam type="int" name="matched_xlink_beta" value="0"/>
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72 <UserParam type="int" name="matched_common_alpha" value="0"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
73 <UserParam type="int" name="matched_common_beta" value="0"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
74 <UserParam type="string" name="selected" value="false"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
75 <UserParam type="string" name="protein_references" value="unique"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
76 </PeptideHit>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
77 </PeptideIdentification>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
78 <PeptideIdentification score_type="OpenXQuest:combined score" higher_score_better="true" significance_threshold="0" MZ="467.945617675781" RT="2129.23608398438" spectrum_reference="spectrum=123,spectrum=77" >
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
79 <PeptideHit score="28.2731402412177" sequence="GGVHVK(Xlink:DSS)LAHLSK" charge="3" aa_before="R" aa_after="H" start="292" end="303" protein_refs="PH_0" >
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
80 <UserParam type="string" name="fragment_annotation" value="396.987884521484,0.384458035230637,3,&quot;[alpha|xi$y9]&quot;|449.323913574219,0.387931138277054,3,&quot;[alpha|xi$y11]&quot;|450.284820556641,0.393777251243591,1,&quot;[alpha|ci$b5]&quot;|484.207611083984,0.215591758489609,1,&quot;[alpha|ci$y4]&quot;|555.274353027344,0.297201305627823,1,&quot;[alpha|ci$y5]&quot;|595.053527832031,1,2,&quot;[alpha|xi$y9]&quot;|668.345275878906,0.243629142642021,1,&quot;[alpha|ci$y6]&quot;"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
81 <UserParam type="string" name="spectrum_reference" value="spectrum=123"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
82 <UserParam type="string" name="target_decoy" value="target"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
83 <UserParam type="int" name="spectrum_index" value="101"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
84 <UserParam type="float" name="xl_mass" value="156.07864431"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
85 <UserParam type="string" name="xl_chain" value="MS:1002509"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
86 <UserParam type="int" name="xl_pos" value="5"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
87 <UserParam type="string" name="xl_type" value="mono-link"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
88 <UserParam type="int" name="xl_rank" value="1"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
89 <UserParam type="string" name="xl_term_spec" value="ANYWHERE"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
90 <UserParam type="float" name="spec_heavy_RT" value="2110.98901367188"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
91 <UserParam type="float" name="spec_heavy_MZ" value="471.971282958984"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
92 <UserParam type="string" name="spectrum_reference_heavy" value="spectrum=77"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
93 <UserParam type="int" name="spectrum_index_heavy" value="63"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
94 <UserParam type="float" name="OMS:precursor_mz_error_ppm" value="0.735970556846563"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
95 <UserParam type="float" name="OpenXQuest:xcorr xlink" value="0.237457299396362"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
96 <UserParam type="float" name="OpenXQuest:xcorr common" value="0.529048564861274"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
97 <UserParam type="float" name="OpenXQuest:match-odds" value="1.3649637673649"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
98 <UserParam type="float" name="OpenXQuest:intsum" value="2.92258863151073"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
99 <UserParam type="float" name="OpenXQuest:wTIC" value="0.660300024858228"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
100 <UserParam type="float" name="OpenXQuest:TIC" value="0.660300024858228"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
101 <UserParam type="float" name="OpenXQuest:prescore" value="0.0795454531908035"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
102 <UserParam type="float" name="OpenXQuest:log_occupancy" value="3.16483711801473"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
103 <UserParam type="float" name="OpenXQuest:log_occupancy_alpha" value="3.16483711801473"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
104 <UserParam type="float" name="OpenXQuest:log_occupancy_beta" value="0"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
105 <UserParam type="float" name="OpenXQuest:log_occupancy_full_spec" value="2.33666522248801"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
106 <UserParam type="float" name="HyperCommon" value="5.59770114368979"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
107 <UserParam type="float" name="HyperXlink" value="4.32762764114041"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
108 <UserParam type="float" name="HyperAlpha" value="11.9960758128656"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
109 <UserParam type="float" name="HyperBeta" value="0"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
110 <UserParam type="float" name="HyperBoth" value="11.9960758128656"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
111 <UserParam type="int" name="matched_xlink_alpha" value="3"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
112 <UserParam type="int" name="matched_xlink_beta" value="0"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
113 <UserParam type="int" name="matched_common_alpha" value="4"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
114 <UserParam type="int" name="matched_common_beta" value="0"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
115 <UserParam type="string" name="selected" value="false"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
116 <UserParam type="string" name="protein_references" value="unique"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
117 </PeptideHit>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
118 </PeptideIdentification>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
119 <PeptideIdentification score_type="OpenXQuest:combined score" higher_score_better="true" significance_threshold="0" MZ="656.050903320313" RT="2228.50292963107" spectrum_reference="spectrum=238,spectrum=219" >
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
120 <PeptideHit score="30.0056519661123" sequence="EVIELPLK(Xlink:DSS)NPELFLR" charge="3" aa_before="R" aa_after="V" start="145" end="159" protein_refs="PH_2" >
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
121 <UserParam type="string" name="fragment_annotation" value="387.815673828125,0.215708956122398,2,&quot;[alpha|ci$y6]&quot;|435.218322753906,0.0836383178830147,1,&quot;[alpha|ci$y3]&quot;|444.946411132812,0.119465403258801,2,&quot;[alpha|ci$y7]&quot;|471.207763671875,0.061412189155817,1,&quot;[alpha|ci$b4]&quot;|584.244018554688,0.203754380345345,1,&quot;[alpha|ci$b5]&quot;|692.068786621094,1,2,&quot;[alpha|xi$y10]&quot;|748.578674316406,0.292433172464371,2,&quot;[alpha|xi$y11]&quot;|774.424987792969,0.361789405345917,1,&quot;[alpha|ci$y6]&quot;|812.867004394531,0.152033895254135,2,&quot;[alpha|xi$y12]&quot;|839.981567382812,0.125570505857468,2,&quot;[alpha|xi$b13]&quot;|888.39013671875,0.356793075799942,1,&quot;[alpha|ci$y7]&quot;|896.316162109375,0.0581442341208458,2,&quot;[alpha|xi$b14]&quot;"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
122 <UserParam type="string" name="spectrum_reference" value="spectrum=238"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
123 <UserParam type="string" name="target_decoy" value="target"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
124 <UserParam type="int" name="spectrum_index" value="195"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
125 <UserParam type="float" name="xl_mass" value="156.07864431"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
126 <UserParam type="string" name="xl_chain" value="MS:1002509"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
127 <UserParam type="int" name="xl_pos" value="7"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
128 <UserParam type="string" name="xl_type" value="mono-link"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
129 <UserParam type="int" name="xl_rank" value="1"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
130 <UserParam type="string" name="xl_term_spec" value="ANYWHERE"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
131 <UserParam type="float" name="spec_heavy_RT" value="2221.23388666232"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
132 <UserParam type="float" name="spec_heavy_MZ" value="660.072448730469"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
133 <UserParam type="string" name="spectrum_reference_heavy" value="spectrum=219"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
134 <UserParam type="int" name="spectrum_index_heavy" value="180"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
135 <UserParam type="float" name="OMS:precursor_mz_error_ppm" value="6.2016465793789"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
136 <UserParam type="float" name="OpenXQuest:xcorr xlink" value="0.389891893192958"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
137 <UserParam type="float" name="OpenXQuest:xcorr common" value="0.462351176037813"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
138 <UserParam type="float" name="OpenXQuest:match-odds" value="2.59304858228082"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
139 <UserParam type="float" name="OpenXQuest:intsum" value="3.03074353560805"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
diff changeset
140 <UserParam type="float" name="OpenXQuest:wTIC" value="0.672367841921044"/>
1f0a9c3cb526 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
galaxyp
parents:
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141 <UserParam type="float" name="OpenXQuest:TIC" value="0.672367841921044"/>
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142 <UserParam type="float" name="OpenXQuest:prescore" value="0.107142858207226"/>
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143 <UserParam type="float" name="OpenXQuest:log_occupancy" value="5.62904796479063"/>
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144 <UserParam type="float" name="OpenXQuest:log_occupancy_alpha" value="5.62904796479063"/>
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145 <UserParam type="float" name="OpenXQuest:log_occupancy_beta" value="0"/>
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146 <UserParam type="float" name="OpenXQuest:log_occupancy_full_spec" value="5.33167976719043"/>
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147 <UserParam type="float" name="HyperCommon" value="8.15707933298946"/>
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148 <UserParam type="float" name="HyperXlink" value="4.59543196178458"/>
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149 <UserParam type="float" name="HyperAlpha" value="17.3945020752073"/>
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150 <UserParam type="float" name="HyperBeta" value="0"/>
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151 <UserParam type="float" name="HyperBoth" value="17.3945020752073"/>
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152 <UserParam type="int" name="matched_xlink_alpha" value="5"/>
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153 <UserParam type="int" name="matched_xlink_beta" value="0"/>
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154 <UserParam type="int" name="matched_common_alpha" value="7"/>
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155 <UserParam type="int" name="matched_common_beta" value="0"/>
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156 <UserParam type="string" name="selected" value="false"/>
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157 <UserParam type="string" name="protein_references" value="unique"/>
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158 </PeptideHit>
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159 </PeptideIdentification>
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160 </IdentificationRun>
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161 </IdXML>