Thermal proximity co-aggregation with R


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Documentation for package ‘Rtpca’ version 1.4.0

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CommonFeatures Extract CommonFeatures
CommonFeatures-method Extract CommonFeatures
ComplexAnnotation Extract ComplexAnnotation
ComplexAnnotation-method Extract ComplexAnnotation
ComplexBackgroundDistributionList Extract ComplexBackgroundDistributionList
ComplexBackgroundDistributionList-method Extract ComplexBackgroundDistributionList
ComplexRocTable Extract ComplexRocTable
ComplexRocTable-method Extract ComplexRocTable
ContrastCondName Extract ContrastCondName
ContrastCondName-method Extract ContrastCondName
ContrastDistMat Extract ContrastDistMat
ContrastDistMat-method Extract ContrastDistMat
ContrastList Extract ContrastList
ContrastList-method Extract ContrastList
createDistMat Create distance matrix of all vs all protein melting profiles
CtrlCondName Extract CtrlCondName
CtrlCondName-method Extract CtrlCondName
diffTpcaResultTable Extract diffTpcaResultTable
diffTpcaResultTable-method Extract diffTpcaResultTable
DistMat Extract DistMat
DistMat-method Extract DistMat
DistMethod Extract DistMethod
DistMethod-method Extract DistMethod
ObjList Extract ObjList
ObjList-method Extract ObjList
ori_et_al_complexes_df Data frame of annotated protein complexes by Ori et al.
ori_et_al_complex_ppis Data frame of eukaryotic protein-protein interactions inferred from annotated protein complexes by Ori et al. and StringDB interations with a combined score of at least 900
plotComplexRoc Plot Complex ROC curve
plotDiffTpcaVolcano Plot differential TPCA analysis results
plotPPiProfiles Plot thermal profile of protein pairs
plotPPiRoc Plot PPI ROC curve
plotTpcaVolcano Plot TPCA analysis results
PPiAnnotation Extract PPiAnnotation
PPiAnnotation-method Extract PPiAnnotation
PPiRocTable Extract PPiRocTable
PPiRocTable-method Extract PPiRocTable
PPiRocTableAnno Extract PPiRocTableAnno
PPiRocTableAnno-method Extract PPiRocTableAnno
runDiffTPCA Run differential TPCA analysis
runTPCA Run the TPCA analysis
SetCommonFeatures Set CommonFeatures
SetCommonFeatures-method Set CommonFeatures
SetComplexAnnotation Set ComplexAnnotation
SetComplexAnnotation-method Set ComplexAnnotation
SetComplexBackgroundDistributionList Set ComplexBackgroundDistributionList
SetComplexBackgroundDistributionList-method Set ComplexBackgroundDistributionList
SetComplexRocTable Set ComplexRocTable
SetComplexRocTable-method Set ComplexRocTable
SetContrastCondName Set ContrastCondName
SetContrastCondName-method Set ContrastCondName
SetContrastDistMat Set ContrastDistMat
SetContrastDistMat-method Set ContrastDistMat
SetCtrlCondName Set CtrlCondName
SetCtrlCondName-method Set CtrlCondName
SetDiffTpcaResultTable Set diffTpcaResultTable
SetDiffTpcaResultTable-method Set diffTpcaResultTable
SetDistMat Set DistMat
SetDistMat-method Set DistMat
SetDistMethod Set distMethod
SetDistMethod-method Set distMethod
SetPPiRocTable Set PPiRocTable
SetPPiRocTable-method Set PPiRocTable
SetPPiRocTableAnno Set PPiRocTableAnno
SetPPiRocTableAnno-method Set PPiRocTableAnno
SetSummaryMethod Set summaryMethod
SetSummaryMethod-method Set summaryMethod
SetTpcaResultTable Set TpcaResultTable
SetTpcaResultTable-method Set TpcaResultTable
string_ppi_df Data frame of annotated human protein-protein interactions retrieved from stringDB with a combined interaction score equal or higher than 700
SummaryMethod Extract SummaryMethod
SummaryMethod-method Extract SummaryMethod
tpcaResult S4 TPCA Result Class
tpcaResult-class S4 TPCA Result Class
tpcaResultTable Extract tpcaResultTable
tpcaResultTable-method Extract tpcaResultTable