API for protViz/SRMService
Performs Service SRM and LFQ analysis

Global functions
AnalysisConfiguration Man page
AnalysisParameters Man page
AnalysisTableAnnotation Man page
Annotation Man page
Do2grpTtestOnMatrixAndBHcorrReturnAllInternalTrafo Source code
Do2grpTtestRobustOnMatrixAndBHcorrWithThresholdAndFoldChangeAndR Source code
DoCorrelationOnMatrix Source code
ExtractMatrix Source code
Grp2Analysis Man page
Grp2Analysis-class Man page
ImputeValuesInProtMatrixForRowsWithZeros Source code
MQtoMSstatsFormat Man page Source code
MSstatsMapping Man page Source code
NormalizeWithMedianPQMatrix Source code
PeptideTable Man page
PeptideTable-class Man page
ProteinTable Man page
ProteinTable-class Man page
ProteinTableR6 Man page
ProteinVariableSelect Man page
QCProteinReport Man page
QCProteinReport-class Man page
R6extractValues Man page Source code
RMD_LibraryGen_specLProzor Man page Source code
RMD_MQ_Quant_2GrpAnalysis Man page Source code
RMD_MQ_Quant_QCReport Man page Source code
RMD_PD_Quant_2GrpAnalysis Man page Source code
RMD_QC1To1_Old Man page Source code
RMD_SRM_QC_Normalization Man page Source code
RMD_VarSelection Man page Source code
RemoveRowsWithZerosFromProtMatrix Source code
RobustFtest.returnpValue Source code
RobustTtest.returnpValue Source code
SRMService Man page
SRMService-class Man page
TransitionTable Man page
TransitionTable-class Man page
aggregateTopNIntensities Man page Source code
annotationColumns Man page
cast_maxquant_to_wide_glf Source code
contrasts.fit.NA Man page Source code
correlatedPeptideList Man page
craeteSkylineConfiguration Man page Source code
decorelatedPly Man page Source code
eb.fit Man page Source code
extractIntensities Man page Source code
fgcz_render_One2OneReport Man page Source code
filterEvidence Source code
filterProteinGroups Source code
findDecorrelated Source code
fixConditionMapping Source code
fixScaffoldQuantReport Man page Source code
fix_PD_inputFiles Man page Source code
gatherItBack Man page Source code
genericQuantMatrixGRP2 Man page
getConditionColumns Man page Source code
getIDLabels Man page Source code
getIntensities Man page Source code
getLongFormat Source code
getMissingStats Man page Source code
getPVals Man page Source code
getRequiredColumns Man page Source code
hierarchyCounts Man page Source code
impute_correlationBased Man page Source code
linePlotHierarchy_QuantLine Man page Source code
linePlotHierarchy_configuration Man page Source code
linePlotHierarchy_default Man page Source code
m_inner_join Source code
markDecorrelated Man page Source code
medpolishPly Man page Source code
melt_maxquant_to_long_glf Source code
mergeLimmEBayesResult Man page Source code
missignessHistogram Man page Source code
missingPerCondition Man page Source code
missingPerConditionCumsum Man page Source code
multigroupEBaysQvalue Man page Source code
nr_B_in_A Man page Source code
onAttach Source code
piwotPiw Man page Source code
plotNicely Man page Source code
proteinColumns Man page
rankPrecursorsByIntensity Man page Source code
rankPrecursorsByNAs Man page Source code
rankProteinPrecursors Source code
reestablishCondition Man page Source code
remap_PD_ProteinTable Man page Source code
removeDecorrelated Source code
remove_feature_with_few Source code
reportMissing Source code
sample_analysis Man page
sample_analysis_HL Man page
scriptCopyHelperVec Source code
setIntensitiesToNA Man page Source code Source code
setupDataFrame Man page Source code
setup_analysis Man page Source code
simpleImpute Source code
skylinePRMSampleData Man page
skylineSRM_HL_data Man page
skylineconfig Man page
skylineconfig_HL Man page
spectronautDIAData250 Man page
spreadValueVarsIsotopeLabel Man page Source code
summariseNAs Man page Source code
summariseQValues Man page Source code
summarizeHierarchy Man page Source code
summarizeProteins Man page Source code
tidyMQ_Evidence Source code
tidyMQ_Peptides Man page Source code
tidyMQ_ProteinGroups Man page Source code
toWide Man page Source code
toWideConfig Man page Source code
transitionCorrelations Man page Source code Source code
transitionCorrelationsJack Man page Source code
protViz/SRMService documentation built on July 10, 2018, 12:44 p.m.