addMisscleavedPeptides | Add miss-cleaved peptide expression levels for old isotope... |
barplotCounts | Number of detected features per sample |
barplotTimeCoverage | Number of detected features per sample |
buildLinkerDf | Constructs a linkerDf that can be used as input when... |
calculateAIC | Calculates the Akaike Information Criteria (AIC) |
calculateIsotopeFraction | Calculates the incorporated isotope fraction |
calculateIsotopeRatio | Ratio calculation |
calculateOldIsotopePool | Estimates the fraction of old isotope for each time point |
compareAIC | Calculates the probability of each model from a set of... |
filterByMissingTimepoints | Filter proteins/peptides by the amount of measurements... |
mefPE | SilacProteomicsExperiment with pulsed silac data from MEFs |
merge | Merge |
mergeModelsLists | Merge several models lists. |
modelTurnover | Estimate protein/peptide turnover |
mostStable | Most stable proteins/peptides |
plotDistributionAssay | Distribution of assay data per condition and timepoint. |
plotDistributionModel | Distribution of modelling output |
plotIndividualModel | Fitted model(s) for a feature |
recycleLightLysine | Data frame with miss cleaved peptides quantifications from... |
scatterCompareAssays | Scatter plot of two conditions for each timepoint of an... |
scatterCompareModels | Scatter plot of two conditions for a model metric. |
SilacPeptideExperiment-class | SilacPeptideExperiment class |
SilacPeptideExperiment-constructor | SilacPeptideExperiment constructor |
SilacProteinExperiment-class | SilacProteinExperiment class |
SilacProteinExperiment-constructor | SilacProteinExperiment constructor |
SilacProteinPeptideExperiment-accessors | Accessors for the SilacProteinExperiment and... |
SilacProteomicsExperiment-accessors | Accessors for the SilacProteomicsExperiment class |
SilacProteomicsExperiment-class | SilacProteomicsExperiment class |
SilacProteomicsExperiment-constructor | SilacProteomicsExperiment constructor |
upsetTimeCoverage | Number of detected features per sample |
wormsPE | ProteomicsExperiment with pulsed silac data from C. elegans... |
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