Thermal proximity co-aggregation with R
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Documentation for package ‘Rtpca’ version 1.19.0
Help Pages
| 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 |