Repository revision
1:764e011f1b0e

Repository 'proteomiqon_labeledproteinquantification'
hg clone https://toolshed.g2.bx.psu.edu/repos/galaxyp/proteomiqon_labeledproteinquantification

Proteomiqon LabeledProteinQuantification tool metadata
Miscellaneous
Proteomiqon LabeledProteinQuantification
estimates protein abundances using quantified peptide ions.
proteomiqon_labeledproteinquantification
toolshed.g2.bx.psu.edu/repos/galaxyp/proteomiqon_labeledproteinquantification/proteomiqon_labeledproteinquantification/0.0.1
0.0.1
None
True
Version lineage of this tool (guids ordered most recent to oldest)
toolshed.g2.bx.psu.edu/repos/galaxyp/proteomiqon_labeledproteinquantification/proteomiqon_labeledproteinquantification/0.0.1 (this tool)
proteomiqon_labeledproteinquantification
Requirements (dependencies defined in the <requirements> tag set)
name version type
proteomiqon-labeledproteinquantification 0.0.1 package
Additional information about this tool
#import re
        #for $quantAndProtFile in $proteinassignedquantpepions
            #set basename = $re.sub(r'[^\w ,.\-+]','_',$quantAndProtFile.element_identifier)
            ln -s '$quantAndProtFile' '${basename}.quantAndProt' &&
        #end for
        #if $outputParamfile:
            cat '$paramfile' >> '$out_paramfile' &&
        #end if
        ln -s '$out_labeledQuant' 'LabeledQuant.txt' &&
        proteomiqon-labeledproteinquantification -i './' -p '$paramfile' -o './'
None
False
Functional tests
name inputs outputs required files
Test-1 proteinassignedquantpepions: sample.quantAndProt
CorrelationLightHeavyThreshold: 0.0
ModificationFilterCond|ModificationFilter: All
GlobalAggregationParams|LabeledTransform|LabeledTransformLightCond|Type: None
GlobalAggregationParams|LabeledTransform|LabeledTransformHeavyCond|Type: None
GlobalAggregationParams|LabeledTransform|LabeledTransformRatioCond|Type: None
GlobalAggregationParams|LabeledSingleFilters|Light|BiggerThan:
GlobalAggregationParams|LabeledSingleFilters|Light|SmallerThan:
GlobalAggregationParams|LabeledSingleFilters|Heavy|BiggerThan:
GlobalAggregationParams|LabeledSingleFilters|Heavy|SmallerThan:
GlobalAggregationParams|LabeledSingleFilters|Ratio|BiggerThan:
GlobalAggregationParams|LabeledSingleFilters|Ratio|SmallerThan:
GlobalAggregationParams|LabeledGroupFilters|Light|Tukey:
GlobalAggregationParams|LabeledGroupFilters|Light|Stdev:
GlobalAggregationParams|LabeledGroupFilters|Heavy|Tukey:
GlobalAggregationParams|LabeledGroupFilters|Heavy|Stdev:
GlobalAggregationParams|LabeledGroupFilters|Ratio|Tukey:
GlobalAggregationParams|LabeledGroupFilters|Ratio|Stdev:
GlobalAggregationParams|LabeledAggregation|labeledAggregationLight: Mean
GlobalAggregationParams|LabeledAggregation|labeledAggregationHeavy: Mean
GlobalAggregationParams|LabeledAggregation|labeledAggregationRatio: Mean
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|AggregateModifiedPeptidesParamsEnabled: no
AggregateToProteinGroupsParams|LabeledTransform|LabeledTransformLightCond|Type: None
AggregateToProteinGroupsParams|LabeledTransform|LabeledTransformHeavyCond|Type: None
AggregateToProteinGroupsParams|LabeledTransform|LabeledTransformRatioCond|Type: None
AggregateToProteinGroupsParams|LabeledSingleFilters|Light|BiggerThan:
AggregateToProteinGroupsParams|LabeledSingleFilters|Light|SmallerThan:
AggregateToProteinGroupsParams|LabeledSingleFilters|Heavy|BiggerThan:
AggregateToProteinGroupsParams|LabeledSingleFilters|Heavy|SmallerThan:
AggregateToProteinGroupsParams|LabeledSingleFilters|Ratio|BiggerThan:
AggregateToProteinGroupsParams|LabeledSingleFilters|Ratio|SmallerThan:
AggregateToProteinGroupsParams|LabeledGroupFilters|Light|Tukey:
AggregateToProteinGroupsParams|LabeledGroupFilters|Light|Stdev:
AggregateToProteinGroupsParams|LabeledGroupFilters|Heavy|Tukey:
AggregateToProteinGroupsParams|LabeledGroupFilters|Heavy|Stdev:
AggregateToProteinGroupsParams|LabeledGroupFilters|Ratio|Tukey:
AggregateToProteinGroupsParams|LabeledGroupFilters|Ratio|Stdev:
AggregateToProteinGroupsParams|LabeledAggregation|labeledAggregationLight: Mean
AggregateToProteinGroupsParams|LabeledAggregation|labeledAggregationHeavy: Mean
AggregateToProteinGroupsParams|LabeledAggregation|labeledAggregationRatio: Mean
outputParamfile: False
 sample.quantAndProt
Test-2 proteinassignedquantpepions: sample.quantAndProt
CorrelationLightHeavyThreshold: 0.0
ModificationFilterCond|ModificationFilter: All
GlobalAggregationParams|LabeledTransform|LabeledTransformLightCond|Type: None
GlobalAggregationParams|LabeledTransform|LabeledTransformHeavyCond|Type: None
GlobalAggregationParams|LabeledTransform|LabeledTransformRatioCond|Type: None
GlobalAggregationParams|LabeledSingleFilters|Light|BiggerThan:
GlobalAggregationParams|LabeledSingleFilters|Light|SmallerThan:
GlobalAggregationParams|LabeledSingleFilters|Heavy|BiggerThan:
GlobalAggregationParams|LabeledSingleFilters|Heavy|SmallerThan:
GlobalAggregationParams|LabeledSingleFilters|Ratio|BiggerThan:
GlobalAggregationParams|LabeledSingleFilters|Ratio|SmallerThan:
GlobalAggregationParams|LabeledGroupFilters|Light|Tukey:
GlobalAggregationParams|LabeledGroupFilters|Light|Stdev:
GlobalAggregationParams|LabeledGroupFilters|Heavy|Tukey:
GlobalAggregationParams|LabeledGroupFilters|Heavy|Stdev:
GlobalAggregationParams|LabeledGroupFilters|Ratio|Tukey:
GlobalAggregationParams|LabeledGroupFilters|Ratio|Stdev:
GlobalAggregationParams|LabeledAggregation|labeledAggregationLight: Mean
GlobalAggregationParams|LabeledAggregation|labeledAggregationHeavy: Mean
GlobalAggregationParams|LabeledAggregation|labeledAggregationRatio: Mean
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|AggregateModifiedPeptidesParamsEnabled: no
AggregateToProteinGroupsParams|LabeledTransform|LabeledTransformLightCond|Type: None
AggregateToProteinGroupsParams|LabeledTransform|LabeledTransformHeavyCond|Type: None
AggregateToProteinGroupsParams|LabeledTransform|LabeledTransformRatioCond|Type: None
AggregateToProteinGroupsParams|LabeledSingleFilters|Light|BiggerThan:
AggregateToProteinGroupsParams|LabeledSingleFilters|Light|SmallerThan:
AggregateToProteinGroupsParams|LabeledSingleFilters|Heavy|BiggerThan:
AggregateToProteinGroupsParams|LabeledSingleFilters|Heavy|SmallerThan:
AggregateToProteinGroupsParams|LabeledSingleFilters|Ratio|BiggerThan:
AggregateToProteinGroupsParams|LabeledSingleFilters|Ratio|SmallerThan:
AggregateToProteinGroupsParams|LabeledGroupFilters|Light|Tukey:
AggregateToProteinGroupsParams|LabeledGroupFilters|Light|Stdev:
AggregateToProteinGroupsParams|LabeledGroupFilters|Heavy|Tukey:
AggregateToProteinGroupsParams|LabeledGroupFilters|Heavy|Stdev:
AggregateToProteinGroupsParams|LabeledGroupFilters|Ratio|Tukey:
AggregateToProteinGroupsParams|LabeledGroupFilters|Ratio|Stdev:
AggregateToProteinGroupsParams|LabeledAggregation|labeledAggregationLight: Mean
AggregateToProteinGroupsParams|LabeledAggregation|labeledAggregationHeavy: Mean
AggregateToProteinGroupsParams|LabeledAggregation|labeledAggregationRatio: Mean
outputParamfile: True
 name: value
 sample.quantAndProt
value
Test-3 proteinassignedquantpepions: sample.quantAndProt
CorrelationLightHeavyThreshold: 1.0
ModificationFilterCond|ModificationFilter: No
GlobalAggregationParams|LabeledTransform|LabeledTransformLightCond|Type: Log2
GlobalAggregationParams|LabeledTransform|LabeledTransformHeavyCond|Type: Log2
GlobalAggregationParams|LabeledTransform|LabeledTransformRatioCond|Type: Log2
GlobalAggregationParams|LabeledSingleFilters|Light|BiggerThan: 1
GlobalAggregationParams|LabeledSingleFilters|Light|SmallerThan: 2
GlobalAggregationParams|LabeledSingleFilters|Heavy|BiggerThan: 1
GlobalAggregationParams|LabeledSingleFilters|Heavy|SmallerThan: 2
GlobalAggregationParams|LabeledSingleFilters|Ratio|BiggerThan: 1
GlobalAggregationParams|LabeledSingleFilters|Ratio|SmallerThan: 2
GlobalAggregationParams|LabeledGroupFilters|Light|Tukey: 1
GlobalAggregationParams|LabeledGroupFilters|Light|Stdev: 2
GlobalAggregationParams|LabeledGroupFilters|Heavy|Tukey: 1
GlobalAggregationParams|LabeledGroupFilters|Heavy|Stdev: 2
GlobalAggregationParams|LabeledGroupFilters|Ratio|Tukey: 1
GlobalAggregationParams|LabeledGroupFilters|Ratio|Stdev: 2
GlobalAggregationParams|LabeledAggregation|labeledAggregationLight: Median
GlobalAggregationParams|LabeledAggregation|labeledAggregationHeavy: Sum
GlobalAggregationParams|LabeledAggregation|labeledAggregationRatio: Sum
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledTransform|LabeledTransformLightCond|Type: Log2
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledTransform|LabeledTransformHeavyCond|Type: Log2
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledTransform|LabeledTransformRatioCond|Type: Log2
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledSingleFilters|Light|BiggerThan: 1
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledSingleFilters|Light|SmallerThan: 2
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledSingleFilters|Heavy|BiggerThan: 1
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledSingleFilters|Heavy|SmallerThan: 2
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledSingleFilters|Ratio|BiggerThan: 1
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledSingleFilters|Ratio|SmallerThan: 2
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledGroupFilters|Light|Tukey: 1
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledGroupFilters|Light|Stdev: 2
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledGroupFilters|Heavy|Tukey: 1
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledGroupFilters|Heavy|Stdev: 2
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledGroupFilters|Ratio|Tukey: 1
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledGroupFilters|Ratio|Stdev: 2
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledAggregation|labeledAggregationLight: Median
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledAggregation|labeledAggregationHeavy: Sum
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledAggregation|labeledAggregationRatio: Sum
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|AggregatePeptideChargeStatesParamsEnabled: yes
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledTransform|LabeledTransformLightCond|Type: Log2
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledTransform|LabeledTransformHeavyCond|Type: Log2
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledTransform|LabeledTransformRatioCond|Type: Log2
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledSingleFilters|Light|BiggerThan: 1
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledSingleFilters|Light|SmallerThan: 2
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledSingleFilters|Heavy|BiggerThan: 1
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledSingleFilters|Heavy|SmallerThan: 2
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledSingleFilters|Ratio|BiggerThan: 1
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledSingleFilters|Ratio|SmallerThan: 2
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledGroupFilters|Light|Tukey: 1
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledGroupFilters|Light|Stdev: 2
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledGroupFilters|Heavy|Tukey: 1
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledGroupFilters|Heavy|Stdev: 2
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledGroupFilters|Ratio|Tukey: 1
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledGroupFilters|Ratio|Stdev: 2
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledAggregation|labeledAggregationLight: Median
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledAggregation|labeledAggregationHeavy: Sum
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledAggregation|labeledAggregationRatio: Sum
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|AggregateModifiedPeptidesParamsEnabled: yes
AggregateToProteinGroupsParams|LabeledTransform|LabeledTransformLightCond|Type: Log2
AggregateToProteinGroupsParams|LabeledTransform|LabeledTransformHeavyCond|Type: Log2
AggregateToProteinGroupsParams|LabeledTransform|LabeledTransformRatioCond|Type: Log2
AggregateToProteinGroupsParams|LabeledSingleFilters|Light|BiggerThan: 1
AggregateToProteinGroupsParams|LabeledSingleFilters|Light|SmallerThan: 2
AggregateToProteinGroupsParams|LabeledSingleFilters|Heavy|BiggerThan: 1
AggregateToProteinGroupsParams|LabeledSingleFilters|Heavy|SmallerThan: 2
AggregateToProteinGroupsParams|LabeledSingleFilters|Ratio|BiggerThan: 1
AggregateToProteinGroupsParams|LabeledSingleFilters|Ratio|SmallerThan: 2
AggregateToProteinGroupsParams|LabeledGroupFilters|Light|Tukey: 1
AggregateToProteinGroupsParams|LabeledGroupFilters|Light|Stdev: 2
AggregateToProteinGroupsParams|LabeledGroupFilters|Heavy|Tukey: 1
AggregateToProteinGroupsParams|LabeledGroupFilters|Heavy|Stdev: 2
AggregateToProteinGroupsParams|LabeledGroupFilters|Ratio|Tukey: 1
AggregateToProteinGroupsParams|LabeledGroupFilters|Ratio|Stdev: 2
AggregateToProteinGroupsParams|LabeledAggregation|labeledAggregationLight: Median
AggregateToProteinGroupsParams|LabeledAggregation|labeledAggregationHeavy: Sum
AggregateToProteinGroupsParams|LabeledAggregation|labeledAggregationRatio: Sum
outputParamfile: True
 name: value
 sample.quantAndProt
value
Test-4 proteinassignedquantpepions: sample.quantAndProt
CorrelationLightHeavyThreshold: 1.0
ModificationFilterCond|ModificationFilter: No
GlobalAggregationParams|LabeledTransform|LabeledTransformLightCond|Value: 2
GlobalAggregationParams|LabeledTransform|LabeledTransformLightCond|Type: Substract
GlobalAggregationParams|LabeledTransform|LabeledTransformHeavyCond|Value: 3
GlobalAggregationParams|LabeledTransform|LabeledTransformHeavyCond|Type: Add
GlobalAggregationParams|LabeledTransform|LabeledTransformRatioCond|Value: 4
GlobalAggregationParams|LabeledTransform|LabeledTransformRatioCond|Type: DivideBy
GlobalAggregationParams|LabeledSingleFilters|Light|BiggerThan: 1
GlobalAggregationParams|LabeledSingleFilters|Light|SmallerThan: 2
GlobalAggregationParams|LabeledSingleFilters|Heavy|BiggerThan: 1
GlobalAggregationParams|LabeledSingleFilters|Heavy|SmallerThan: 2
GlobalAggregationParams|LabeledSingleFilters|Ratio|BiggerThan: 1
GlobalAggregationParams|LabeledSingleFilters|Ratio|SmallerThan: 2
GlobalAggregationParams|LabeledGroupFilters|Light|Tukey: 1
GlobalAggregationParams|LabeledGroupFilters|Light|Stdev: 2
GlobalAggregationParams|LabeledGroupFilters|Heavy|Tukey: 1
GlobalAggregationParams|LabeledGroupFilters|Heavy|Stdev: 2
GlobalAggregationParams|LabeledGroupFilters|Ratio|Tukey: 1
GlobalAggregationParams|LabeledGroupFilters|Ratio|Stdev: 2
GlobalAggregationParams|LabeledAggregation|labeledAggregationLight: Median
GlobalAggregationParams|LabeledAggregation|labeledAggregationHeavy: Sum
GlobalAggregationParams|LabeledAggregation|labeledAggregationRatio: Sum
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledTransform|LabeledTransformLightCond|Type: Log2
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledTransform|LabeledTransformHeavyCond|Type: Log2
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledTransform|LabeledTransformRatioCond|Type: Log2
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledSingleFilters|Light|BiggerThan: 1
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledSingleFilters|Light|SmallerThan: 2
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledSingleFilters|Heavy|BiggerThan: 1
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledSingleFilters|Heavy|SmallerThan: 2
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledSingleFilters|Ratio|BiggerThan: 1
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledSingleFilters|Ratio|SmallerThan: 2
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledGroupFilters|Light|Tukey: 1
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledGroupFilters|Light|Stdev: 2
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledGroupFilters|Heavy|Tukey: 1
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledGroupFilters|Heavy|Stdev: 2
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledGroupFilters|Ratio|Tukey: 1
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledGroupFilters|Ratio|Stdev: 2
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledAggregation|labeledAggregationLight: Median
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledAggregation|labeledAggregationHeavy: Sum
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledAggregation|labeledAggregationRatio: Sum
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|AggregatePeptideChargeStatesParamsEnabled: yes
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledTransform|LabeledTransformLightCond|Type: Log2
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledTransform|LabeledTransformHeavyCond|Type: Log2
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledTransform|LabeledTransformRatioCond|Type: Log2
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledSingleFilters|Light|BiggerThan: 1
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledSingleFilters|Light|SmallerThan: 2
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledSingleFilters|Heavy|BiggerThan: 1
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledSingleFilters|Heavy|SmallerThan: 2
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledSingleFilters|Ratio|BiggerThan: 1
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledSingleFilters|Ratio|SmallerThan: 2
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledGroupFilters|Light|Tukey: 1
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledGroupFilters|Light|Stdev: 2
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledGroupFilters|Heavy|Tukey: 1
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledGroupFilters|Heavy|Stdev: 2
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledGroupFilters|Ratio|Tukey: 1
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledGroupFilters|Ratio|Stdev: 2
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledAggregation|labeledAggregationLight: Median
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledAggregation|labeledAggregationHeavy: Sum
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledAggregation|labeledAggregationRatio: Sum
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|AggregateModifiedPeptidesParamsEnabled: yes
AggregateToProteinGroupsParams|LabeledTransform|LabeledTransformLightCond|Type: Log2
AggregateToProteinGroupsParams|LabeledTransform|LabeledTransformHeavyCond|Type: Log2
AggregateToProteinGroupsParams|LabeledTransform|LabeledTransformRatioCond|Type: Log2
AggregateToProteinGroupsParams|LabeledSingleFilters|Light|BiggerThan: 1
AggregateToProteinGroupsParams|LabeledSingleFilters|Light|SmallerThan: 2
AggregateToProteinGroupsParams|LabeledSingleFilters|Heavy|BiggerThan: 1
AggregateToProteinGroupsParams|LabeledSingleFilters|Heavy|SmallerThan:
AggregateToProteinGroupsParams|LabeledSingleFilters|Ratio|BiggerThan:
AggregateToProteinGroupsParams|LabeledSingleFilters|Ratio|SmallerThan:
AggregateToProteinGroupsParams|LabeledGroupFilters|Light|Tukey: 1
AggregateToProteinGroupsParams|LabeledGroupFilters|Light|Stdev: 2
AggregateToProteinGroupsParams|LabeledGroupFilters|Heavy|Tukey:
AggregateToProteinGroupsParams|LabeledGroupFilters|Heavy|Stdev: 2
AggregateToProteinGroupsParams|LabeledGroupFilters|Ratio|Tukey:
AggregateToProteinGroupsParams|LabeledGroupFilters|Ratio|Stdev:
AggregateToProteinGroupsParams|LabeledAggregation|labeledAggregationLight: Median
AggregateToProteinGroupsParams|LabeledAggregation|labeledAggregationHeavy: Sum
AggregateToProteinGroupsParams|LabeledAggregation|labeledAggregationRatio: Sum
outputParamfile: True
 name: value
 sample.quantAndProt
value
Test-5 proteinassignedquantpepions: sample.quantAndProt
CorrelationLightHeavyThreshold: 1.0
ModificationFilterCond|ModificationFilter: No
GlobalAggregationParams|LabeledTransform|LabeledTransformLightCond|Value: 2
GlobalAggregationParams|LabeledTransform|LabeledTransformLightCond|Type: Substract
GlobalAggregationParams|LabeledTransform|LabeledTransformHeavyCond|Value: 3
GlobalAggregationParams|LabeledTransform|LabeledTransformHeavyCond|Type: Add
GlobalAggregationParams|LabeledTransform|LabeledTransformRatioCond|Value: 4
GlobalAggregationParams|LabeledTransform|LabeledTransformRatioCond|Type: DivideBy
GlobalAggregationParams|LabeledSingleFilters|Light|BiggerThan: 1
GlobalAggregationParams|LabeledSingleFilters|Light|SmallerThan: 2
GlobalAggregationParams|LabeledSingleFilters|Heavy|BiggerThan: 1
GlobalAggregationParams|LabeledSingleFilters|Heavy|SmallerThan: 2
GlobalAggregationParams|LabeledSingleFilters|Ratio|BiggerThan: 1
GlobalAggregationParams|LabeledSingleFilters|Ratio|SmallerThan: 2
GlobalAggregationParams|LabeledGroupFilters|Light|Tukey: 1
GlobalAggregationParams|LabeledGroupFilters|Light|Stdev: 2
GlobalAggregationParams|LabeledGroupFilters|Heavy|Tukey: 1
GlobalAggregationParams|LabeledGroupFilters|Heavy|Stdev: 2
GlobalAggregationParams|LabeledGroupFilters|Ratio|Tukey: 1
GlobalAggregationParams|LabeledGroupFilters|Ratio|Stdev: 2
GlobalAggregationParams|LabeledAggregation|labeledAggregationLight: Median
GlobalAggregationParams|LabeledAggregation|labeledAggregationHeavy: Sum
GlobalAggregationParams|LabeledAggregation|labeledAggregationRatio: Sum
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledTransform|LabeledTransformLightCond|Value: 2
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledTransform|LabeledTransformLightCond|Type: Substract
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledTransform|LabeledTransformHeavyCond|Value: 3
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledTransform|LabeledTransformHeavyCond|Type: Add
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledTransform|LabeledTransformRatioCond|Value: 4
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledTransform|LabeledTransformRatioCond|Type: DivideBy
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledSingleFilters|Light|BiggerThan: 1
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledSingleFilters|Light|SmallerThan: 2
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledSingleFilters|Heavy|BiggerThan: 1
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledSingleFilters|Heavy|SmallerThan: 2
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledSingleFilters|Ratio|BiggerThan: 1
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledSingleFilters|Ratio|SmallerThan: 2
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledGroupFilters|Light|Tukey: 1
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledGroupFilters|Light|Stdev: 2
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledGroupFilters|Heavy|Tukey: 1
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledGroupFilters|Heavy|Stdev: 2
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledGroupFilters|Ratio|Tukey: 1
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledGroupFilters|Ratio|Stdev: 2
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledAggregation|labeledAggregationLight: Median
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledAggregation|labeledAggregationHeavy: Sum
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledAggregation|labeledAggregationRatio: Sum
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|AggregatePeptideChargeStatesParamsEnabled: yes
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledTransform|LabeledTransformLightCond|Value: 2
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledTransform|LabeledTransformLightCond|Type: Substract
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledTransform|LabeledTransformHeavyCond|Value: 3
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledTransform|LabeledTransformHeavyCond|Type: Add
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledTransform|LabeledTransformRatioCond|Value: 4
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledTransform|LabeledTransformRatioCond|Type: DivideBy
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledSingleFilters|Light|BiggerThan: 1
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledSingleFilters|Light|SmallerThan: 2
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledSingleFilters|Heavy|BiggerThan: 1
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledSingleFilters|Heavy|SmallerThan: 2
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledSingleFilters|Ratio|BiggerThan: 1
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledSingleFilters|Ratio|SmallerThan: 2
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledGroupFilters|Light|Tukey: 1
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledGroupFilters|Light|Stdev: 2
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledGroupFilters|Heavy|Tukey: 1
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledGroupFilters|Heavy|Stdev: 2
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledGroupFilters|Ratio|Tukey: 1
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledGroupFilters|Ratio|Stdev: 2
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledAggregation|labeledAggregationLight: Median
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledAggregation|labeledAggregationHeavy: Sum
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledAggregation|labeledAggregationRatio: Sum
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|AggregateModifiedPeptidesParamsEnabled: yes
AggregateToProteinGroupsParams|LabeledTransform|LabeledTransformLightCond|Value: 2
AggregateToProteinGroupsParams|LabeledTransform|LabeledTransformLightCond|Type: Substract
AggregateToProteinGroupsParams|LabeledTransform|LabeledTransformHeavyCond|Value: 3
AggregateToProteinGroupsParams|LabeledTransform|LabeledTransformHeavyCond|Type: Add
AggregateToProteinGroupsParams|LabeledTransform|LabeledTransformRatioCond|Value: 4
AggregateToProteinGroupsParams|LabeledTransform|LabeledTransformRatioCond|Type: DivideBy
AggregateToProteinGroupsParams|LabeledSingleFilters|Light|BiggerThan: 1
AggregateToProteinGroupsParams|LabeledSingleFilters|Light|SmallerThan: 2
AggregateToProteinGroupsParams|LabeledSingleFilters|Heavy|BiggerThan: 1
AggregateToProteinGroupsParams|LabeledSingleFilters|Heavy|SmallerThan:
AggregateToProteinGroupsParams|LabeledSingleFilters|Ratio|BiggerThan:
AggregateToProteinGroupsParams|LabeledSingleFilters|Ratio|SmallerThan:
AggregateToProteinGroupsParams|LabeledGroupFilters|Light|Tukey: 1
AggregateToProteinGroupsParams|LabeledGroupFilters|Light|Stdev: 2
AggregateToProteinGroupsParams|LabeledGroupFilters|Heavy|Tukey:
AggregateToProteinGroupsParams|LabeledGroupFilters|Heavy|Stdev: 2
AggregateToProteinGroupsParams|LabeledGroupFilters|Ratio|Tukey:
AggregateToProteinGroupsParams|LabeledGroupFilters|Ratio|Stdev:
AggregateToProteinGroupsParams|LabeledAggregation|labeledAggregationLight: Median
AggregateToProteinGroupsParams|LabeledAggregation|labeledAggregationHeavy: Sum
AggregateToProteinGroupsParams|LabeledAggregation|labeledAggregationRatio: Sum
outputParamfile: True
 name: value
 sample.quantAndProt
value
Test-6 proteinassignedquantpepions: sample.quantAndProt
CorrelationLightHeavyThreshold: 1.0
ModificationFilterCond|ModificationFilter: No
GlobalAggregationParams|LabeledTransform|LabeledTransformLightCond|Value: 2
GlobalAggregationParams|LabeledTransform|LabeledTransformLightCond|Type: Substract
GlobalAggregationParams|LabeledTransform|LabeledTransformHeavyCond|Value: 3
GlobalAggregationParams|LabeledTransform|LabeledTransformHeavyCond|Type: Add
GlobalAggregationParams|LabeledTransform|LabeledTransformRatioCond|Value: 4
GlobalAggregationParams|LabeledTransform|LabeledTransformRatioCond|Type: DivideBy
GlobalAggregationParams|LabeledSingleFilters|Light|BiggerThan: 1
GlobalAggregationParams|LabeledSingleFilters|Light|SmallerThan: 2
GlobalAggregationParams|LabeledSingleFilters|Heavy|BiggerThan: 1
GlobalAggregationParams|LabeledSingleFilters|Heavy|SmallerThan: 2
GlobalAggregationParams|LabeledSingleFilters|Ratio|BiggerThan: 1
GlobalAggregationParams|LabeledSingleFilters|Ratio|SmallerThan: 2
GlobalAggregationParams|LabeledGroupFilters|Light|Tukey: 1
GlobalAggregationParams|LabeledGroupFilters|Light|Stdev: 2
GlobalAggregationParams|LabeledGroupFilters|Heavy|Tukey: 1
GlobalAggregationParams|LabeledGroupFilters|Heavy|Stdev: 2
GlobalAggregationParams|LabeledGroupFilters|Ratio|Tukey: 1
GlobalAggregationParams|LabeledGroupFilters|Ratio|Stdev: 2
GlobalAggregationParams|LabeledAggregation|labeledAggregationLight: Sum
GlobalAggregationParams|LabeledAggregation|labeledAggregationHeavy: Median
GlobalAggregationParams|LabeledAggregation|labeledAggregationRatio: Median
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledTransform|LabeledTransformLightCond|Value: 2
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledTransform|LabeledTransformLightCond|Type: Substract
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledTransform|LabeledTransformHeavyCond|Value: 3
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledTransform|LabeledTransformHeavyCond|Type: Add
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledTransform|LabeledTransformRatioCond|Value: 4
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledTransform|LabeledTransformRatioCond|Type: DivideBy
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledSingleFilters|Light|BiggerThan: 1
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledSingleFilters|Light|SmallerThan: 2
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledSingleFilters|Heavy|BiggerThan: 1
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledSingleFilters|Heavy|SmallerThan: 2
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledSingleFilters|Ratio|BiggerThan: 1
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledSingleFilters|Ratio|SmallerThan: 2
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledGroupFilters|Light|Tukey: 1
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledGroupFilters|Light|Stdev: 2
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledGroupFilters|Heavy|Tukey: 1
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledGroupFilters|Heavy|Stdev: 2
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledGroupFilters|Ratio|Tukey: 1
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledGroupFilters|Ratio|Stdev: 2
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledAggregation|labeledAggregationLight: Sum
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledAggregation|labeledAggregationHeavy: Median
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledAggregation|labeledAggregationRatio: Median
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|AggregatePeptideChargeStatesParamsEnabled: yes
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledTransform|LabeledTransformLightCond|Value: 2
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledTransform|LabeledTransformLightCond|Type: Substract
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledTransform|LabeledTransformHeavyCond|Value: 3
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledTransform|LabeledTransformHeavyCond|Type: Add
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledTransform|LabeledTransformRatioCond|Value: 4
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledTransform|LabeledTransformRatioCond|Type: DivideBy
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledSingleFilters|Light|BiggerThan: 1
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledSingleFilters|Light|SmallerThan: 2
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledSingleFilters|Heavy|BiggerThan: 1
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledSingleFilters|Heavy|SmallerThan: 2
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledSingleFilters|Ratio|BiggerThan: 1
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledSingleFilters|Ratio|SmallerThan: 2
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledGroupFilters|Light|Tukey: 1
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledGroupFilters|Light|Stdev: 2
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledGroupFilters|Heavy|Tukey: 1
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledGroupFilters|Heavy|Stdev: 2
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledGroupFilters|Ratio|Tukey: 1
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledGroupFilters|Ratio|Stdev: 2
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledAggregation|labeledAggregationLight: Sum
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledAggregation|labeledAggregationHeavy: Median
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledAggregation|labeledAggregationRatio: Median
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|AggregateModifiedPeptidesParamsEnabled: yes
AggregateToProteinGroupsParams|LabeledTransform|LabeledTransformLightCond|Value: 2
AggregateToProteinGroupsParams|LabeledTransform|LabeledTransformLightCond|Type: Substract
AggregateToProteinGroupsParams|LabeledTransform|LabeledTransformHeavyCond|Value: 3
AggregateToProteinGroupsParams|LabeledTransform|LabeledTransformHeavyCond|Type: Add
AggregateToProteinGroupsParams|LabeledTransform|LabeledTransformRatioCond|Value: 4
AggregateToProteinGroupsParams|LabeledTransform|LabeledTransformRatioCond|Type: DivideBy
AggregateToProteinGroupsParams|LabeledSingleFilters|Light|BiggerThan: 1
AggregateToProteinGroupsParams|LabeledSingleFilters|Light|SmallerThan: 2
AggregateToProteinGroupsParams|LabeledSingleFilters|Heavy|BiggerThan: 1
AggregateToProteinGroupsParams|LabeledSingleFilters|Heavy|SmallerThan:
AggregateToProteinGroupsParams|LabeledSingleFilters|Ratio|BiggerThan:
AggregateToProteinGroupsParams|LabeledSingleFilters|Ratio|SmallerThan:
AggregateToProteinGroupsParams|LabeledGroupFilters|Light|Tukey: 1
AggregateToProteinGroupsParams|LabeledGroupFilters|Light|Stdev: 2
AggregateToProteinGroupsParams|LabeledGroupFilters|Heavy|Tukey:
AggregateToProteinGroupsParams|LabeledGroupFilters|Heavy|Stdev: 2
AggregateToProteinGroupsParams|LabeledGroupFilters|Ratio|Tukey:
AggregateToProteinGroupsParams|LabeledGroupFilters|Ratio|Stdev:
AggregateToProteinGroupsParams|LabeledAggregation|labeledAggregationLight: Sum
AggregateToProteinGroupsParams|LabeledAggregation|labeledAggregationHeavy: Median
AggregateToProteinGroupsParams|LabeledAggregation|labeledAggregationRatio: Median
outputParamfile: True
 name: value
 sample.quantAndProt
value
Test-7 proteinassignedquantpepions: sample.quantAndProt
CorrelationLightHeavyThreshold: 1.0
ModificationFilterCond|ModificationFilterSequence: ["Acetylation'ProtNTerm'", "Carbamidomethyl'Cys'", "Oxidation'Met'", "Phosphorylation'Ser'Thr'Tyr'", "Pyro_Glu'GluNterm'", "Pyro_Glu'GlnNterm'"]
ModificationFilterCond|ModificationFilter: UseOnly
GlobalAggregationParams|LabeledTransform|LabeledTransformLightCond|Value: 2
GlobalAggregationParams|LabeledTransform|LabeledTransformLightCond|Type: Substract
GlobalAggregationParams|LabeledTransform|LabeledTransformHeavyCond|Value: 3
GlobalAggregationParams|LabeledTransform|LabeledTransformHeavyCond|Type: Add
GlobalAggregationParams|LabeledTransform|LabeledTransformRatioCond|Value: 4
GlobalAggregationParams|LabeledTransform|LabeledTransformRatioCond|Type: DivideBy
GlobalAggregationParams|LabeledSingleFilters|Light|BiggerThan: 1
GlobalAggregationParams|LabeledSingleFilters|Light|SmallerThan: 2
GlobalAggregationParams|LabeledSingleFilters|Heavy|BiggerThan: 1
GlobalAggregationParams|LabeledSingleFilters|Heavy|SmallerThan: 2
GlobalAggregationParams|LabeledSingleFilters|Ratio|BiggerThan: 1
GlobalAggregationParams|LabeledSingleFilters|Ratio|SmallerThan: 2
GlobalAggregationParams|LabeledGroupFilters|Light|Tukey: 1
GlobalAggregationParams|LabeledGroupFilters|Light|Stdev: 2
GlobalAggregationParams|LabeledGroupFilters|Heavy|Tukey: 1
GlobalAggregationParams|LabeledGroupFilters|Heavy|Stdev: 2
GlobalAggregationParams|LabeledGroupFilters|Ratio|Tukey: 1
GlobalAggregationParams|LabeledGroupFilters|Ratio|Stdev: 2
GlobalAggregationParams|LabeledAggregation|labeledAggregationLight: Sum
GlobalAggregationParams|LabeledAggregation|labeledAggregationHeavy: Median
GlobalAggregationParams|LabeledAggregation|labeledAggregationRatio: Median
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledTransform|LabeledTransformLightCond|Value: 2
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledTransform|LabeledTransformLightCond|Type: Substract
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledTransform|LabeledTransformHeavyCond|Value: 3
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledTransform|LabeledTransformHeavyCond|Type: Add
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledTransform|LabeledTransformRatioCond|Value: 4
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledTransform|LabeledTransformRatioCond|Type: DivideBy
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledSingleFilters|Light|BiggerThan: 1
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledSingleFilters|Light|SmallerThan: 2
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledSingleFilters|Heavy|BiggerThan: 1
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledSingleFilters|Heavy|SmallerThan: 2
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledSingleFilters|Ratio|BiggerThan: 1
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledSingleFilters|Ratio|SmallerThan: 2
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledGroupFilters|Light|Tukey: 1
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledGroupFilters|Light|Stdev: 2
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledGroupFilters|Heavy|Tukey: 1
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledGroupFilters|Heavy|Stdev: 2
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledGroupFilters|Ratio|Tukey: 1
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledGroupFilters|Ratio|Stdev: 2
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledAggregation|labeledAggregationLight: Sum
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledAggregation|labeledAggregationHeavy: Median
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|LabeledAggregation|labeledAggregationRatio: Median
AggregatePeptideChargeStatesParams|AggregatePeptideChargeStatesParamsCond|AggregatePeptideChargeStatesParamsEnabled: yes
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledTransform|LabeledTransformLightCond|Value: 2
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledTransform|LabeledTransformLightCond|Type: Substract
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledTransform|LabeledTransformHeavyCond|Value: 3
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledTransform|LabeledTransformHeavyCond|Type: Add
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledTransform|LabeledTransformRatioCond|Value: 4
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledTransform|LabeledTransformRatioCond|Type: DivideBy
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledSingleFilters|Light|BiggerThan: 1
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledSingleFilters|Light|SmallerThan: 2
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledSingleFilters|Heavy|BiggerThan: 1
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledSingleFilters|Heavy|SmallerThan: 2
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledSingleFilters|Ratio|BiggerThan: 1
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledSingleFilters|Ratio|SmallerThan: 2
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledGroupFilters|Light|Tukey: 1
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledGroupFilters|Light|Stdev: 2
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledGroupFilters|Heavy|Tukey: 1
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledGroupFilters|Heavy|Stdev: 2
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledGroupFilters|Ratio|Tukey: 1
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledGroupFilters|Ratio|Stdev: 2
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledAggregation|labeledAggregationLight: Sum
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledAggregation|labeledAggregationHeavy: Median
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|LabeledAggregation|labeledAggregationRatio: Median
AggregateModifiedPeptidesParams|AggregateModifiedPeptidesParamsCond|AggregateModifiedPeptidesParamsEnabled: yes
AggregateToProteinGroupsParams|LabeledTransform|LabeledTransformLightCond|Value: 2
AggregateToProteinGroupsParams|LabeledTransform|LabeledTransformLightCond|Type: Substract
AggregateToProteinGroupsParams|LabeledTransform|LabeledTransformHeavyCond|Value: 3
AggregateToProteinGroupsParams|LabeledTransform|LabeledTransformHeavyCond|Type: Add
AggregateToProteinGroupsParams|LabeledTransform|LabeledTransformRatioCond|Value: 4
AggregateToProteinGroupsParams|LabeledTransform|LabeledTransformRatioCond|Type: DivideBy
AggregateToProteinGroupsParams|LabeledSingleFilters|Light|BiggerThan: 1
AggregateToProteinGroupsParams|LabeledSingleFilters|Light|SmallerThan: 2
AggregateToProteinGroupsParams|LabeledSingleFilters|Heavy|BiggerThan: 1
AggregateToProteinGroupsParams|LabeledSingleFilters|Heavy|SmallerThan:
AggregateToProteinGroupsParams|LabeledSingleFilters|Ratio|BiggerThan:
AggregateToProteinGroupsParams|LabeledSingleFilters|Ratio|SmallerThan:
AggregateToProteinGroupsParams|LabeledGroupFilters|Light|Tukey: 1
AggregateToProteinGroupsParams|LabeledGroupFilters|Light|Stdev: 2
AggregateToProteinGroupsParams|LabeledGroupFilters|Heavy|Tukey:
AggregateToProteinGroupsParams|LabeledGroupFilters|Heavy|Stdev: 2
AggregateToProteinGroupsParams|LabeledGroupFilters|Ratio|Tukey:
AggregateToProteinGroupsParams|LabeledGroupFilters|Ratio|Stdev:
AggregateToProteinGroupsParams|LabeledAggregation|labeledAggregationLight: Sum
AggregateToProteinGroupsParams|LabeledAggregation|labeledAggregationHeavy: Median
AggregateToProteinGroupsParams|LabeledAggregation|labeledAggregationRatio: Median
outputParamfile: True
 name: value
 sample.quantAndProt
value