Man pages for BioAlvaro/MQmetrics
Quality Control of Protemics Data
| generateReport | Generates a report including all the plots of MQmetrics. |
| make_MQCombined | Read MaxQuant Tables From Directory |
| MaxQuantAnalysisInfo | Experiment Information |
| PlotAcquisitionCycle | Acquisition Cycle and MS/MS |
| PlotAllDynamicRange | Plots the dynamic range for all samples |
| PlotAndromedaScore | Andromeda score for the best associated MS/MS spectrum. |
| PlotCharge | The charge-state of the precursor ion. |
| PlotCombinedDynamicRange | Dynamic range of all the samples combined |
| PlotHydrophobicity | Peptide hydrophobicity by GRAVY score |
| PlotIntensity | Intensity / LFQ intensity per sample. |
| PlotiRT | Max intensities of the iRT peptides in each sample. |
| PlotiRTScore | Score vs retention time of the iRT peptides |
| PlotIsotopePattern | Plot Isotope Pattern and Isotope Pattern Sequenced |
| PlotMsMs | Comparison of the MS/MS submitted and identified in each... |
| PlotPCA | Principal Component Analysis of the Intensity values. |
| PlotPeaks | Total number of peaks detected and sequenced |
| PlotPeptidesIdentified | Total number of peaks detected and sequenced |
| PlotProteaseSpecificity | Protease Specificity |
| PlotProteinCoverage | Protein coverage and degradation. |
| PlotProteinOverlap | Protein Overlap Between Samples |
| PlotProteinPeptideRatio | Identification Ratio Between Peptides and Proteins |
| PlotProteinsIdentified | Proteins Identified per sample. |
| PlotPTM | Post-Translational Modifications |
| PlotPTMAcrossSamples | Plot PTM across samples |
| PlotTotalIonCurrent | Total Ion Current |
| ReportTables | Report Tables with summary data |
