API for protViz/SRMService
Performs Service SRM and LFQ analysis

Global functions
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
QCProteinReport Man page
QCProteinReport-class Man page
R6extractValues 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 Source code
annotationColumns Man page
cast_maxquant_to_wide_glf Source code
config_col_map Source code
config_parameters Source code
configurationPlotPeptides Man page
contrasts.fit.NA Man page Source code
correlatedPeptideList Man page
craeteSkylineConfiguration Source code
eb.fit Man page Source code
extractIntensities 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
getConditionColumns Man page Source code
getConfig Source code
getIDLabels Man page Source code
getIntensities Man page Source code
getLongFormat Source code
getMissingStats Source code
getPVals Man page Source code
getRequiredColumns Man page Source code
imputeMissing Source code
imputef Source code
linePlotHierarchy_QuantLine Source code
linePlotHierarchy_configuration Source code
linePlotHierarchy_default Source code
m_inner_join Source code
medpolishPly Source code
melt_maxquant_to_long_glf Source code
mergeLimmEBayesResult Man page Source code
missignessHistogram Source code
missingPerCondition Source code
missingPerConditionCumsum Source code
multigroupEBaysQvalue Man page Source code
nrPrecursors Source code
onAttach Source code
piwotPiw Man page Source code
plotNicely Man page Source code
plotPeptides Man page
precursorIntensities2Wide Source code
proteinColumns Man page
rankPrecursorsByIntensity Source code
rankPrecursorsPerProteinByNAs Source code
rankProteinPrecursors Source code
reestablishCondition Source code
remap_PD_ProteinTable Man page Source code
removeDecorrelated Source code
remove_feature_with_few Source code
reportMissing Source code
scriptCopyHelperVec Source code
setConfig Source code
setIntensitiesToNA Source code
setupDataFrame Source code Source code
simpleImpute Source code
spreadValueVarsIsotopeLabel Source code
summariseNAs Source code
summariseQValues Man page Source code
summarizeCounts Source code
summarizeProtPepPrecursorFragCounts Source code
summarizeProteins Man page Source code
summarizeProteinsCounts Source code
tidyMQ_Evidence Source code
tidyMQ_Peptides Source code
tidyMQ_ProteinGroups Man page Source code
transitionCorrelations Man page Source code Source code
transitionCorrelationsJack Man page Source code
whichDecorellated Source code
protViz/SRMService documentation built on April 25, 2018, 11:40 p.m.