API for Vitek-Lab/MSstatsPTM
Statistical Characterization of Post-translational Modifications
| Global functions | |
|---|---|
| .adjustProteinLevel | Source code |
| .applyPtmAdjustment | Source code |
| .calculatePowerPTM | Man page Source code |
| .check.dataProcess.plotting.data | Source code |
| .check.global.protein | Source code |
| .check.plotting.data | Source code |
| .checkAnnotation | Source code |
| .checkDataProcessParams | Source code |
| .checkDataProcessParams.TMT | Source code |
| .checkMaxQconverterParams | Source code |
| .convert.peps | Source code |
| .convert.ptm.data | Source code |
| .covered_set | Source code |
| .extractProtein | Source code |
| .extractProteinPlot | Source code |
| .fixTerminus | Man page |
| .format.data.process.plots | Source code |
| .format.model.plots | Source code |
| .getNumSamplePTM | Man page Source code |
| .joinFasta | Man page |
| .length_one | Source code |
| .locateCheck | Source code |
| .locateSites | Man page |
| .location | Source code |
| .location_start | Source code |
| .makeContrast | Source code |
| .num_match | Source code |
| .pho.combine.pep | Source code |
| .plot.model.heatmap | Source code |
| .plot.model.volcano | Source code |
| .plot.profile.lf | Source code |
| .plot.profile.summary.lf | Source code |
| .plot.profile.summary.tmt | Source code |
| .plot.profile.tmt | Source code |
| .plotHeatmap | Source code |
| .plotVolcano | Source code |
| .preplot.format.lf | Source code |
| .preplot.format.tmt | Source code |
| .profile.lf | Source code |
| .profile.tmt | Source code |
| .progensis.add.sites | Source code |
| .qc.all.plot | Source code |
| .qc.all.plot.lf | Source code |
| .qc.lf | Source code |
| .qc.single.plot | Source code |
| .qc.single.plot.lf | Source code |
| .qc.tmt | Source code |
| .removeCutoffSites | Man page |
| .rmConfounded | Source code |
| .summarizeCheck | Source code |
| DIANNtoMSstatsPTMFormat | Man page Source code |
| FragPipetoMSstatsPTMFormat | Man page Source code |
| MSstatsPTM | Man page |
| MSstatsPTM-package | Man page |
| MSstatsPTMSiteLocator | Man page Source code |
| MaxQtoMSstatsPTMFormat | Man page Source code |
| MetamorpheusToMSstatsPTMFormat | Man page Source code |
| PDtoMSstatsPTMFormat | Man page Source code |
| PStoMSstatsPTMFormat | Man page Source code |
| ProgenesistoMSstatsPTMFormat | Man page Source code |
| ProteinProspectortoMSstatsPTMFormat | Man page Source code |
| SkylinetoMSstatsPTMFormat | Man page Source code |
| SpectronauttoMSstatsPTMFormat | Man page Source code |
| annotSite | Man page Source code |
| dataProcessPlotsPTM | Man page Source code |
| dataSummarizationPTM | Man page Source code |
| dataSummarizationPTM_TMT | Man page Source code |
| designSampleSizePTM | Man page Source code |
| extract_protein_name | Source code |
| fragpipe_annotation | Man page |
| fragpipe_annotation_protein | Man page |
| fragpipe_input | Man page |
| fragpipe_input_protein | Man page |
| get_sites | Source code |
| groupComparisonPTM | Man page Source code |
| groupComparisonPlotsPTM | Man page Source code |
| locateMod | Man page Source code |
| locatePTM | Man page Source code |
| maxq_lf_annotation | Man page |
| maxq_lf_evidence | Man page |
| maxq_tmt_annotation | Man page |
| maxq_tmt_evidence | Man page |
| pd_annotation | Man page |
| pd_psm_input | Man page |
| pd_testing_output | Man page |
| raw.input | Man page |
| raw.input.tmt | Man page |
| spectro_get_sites | Source code |
| spectronaut_annotation | Man page |
| spectronaut_input | Man page |
| summary.data | Man page |
| summary.data.tmt | Man page |
| tidyFasta | Man page Source code |
