Man pages for HimesGroup/qmtools
Quantitative Metabolomics Data Processing Tools
| clusterFeatures | Feature clustering |
| compareSamples | Sample comparison |
| faahko_se | FAAH knockout LC/MS data SummarizedExperiment |
| imputeIntensity | Imputation methods |
| imputeKNN | k-nearest neighbor imputation |
| normalizeIntensity | Normalization methods |
| normalizePQN | Probabilistic quotient normalization (PQN) |
| plotBox | Box plot |
| plotCorr | Correlation plot |
| plotMiss | Missing value plot |
| plotReduced | Score plot of dimension-reduced data |
| plotRTgroup | Helper to visualize feature grouping |
| qmtools-package | qmtools: Quantitative Metabolomics Data Processing Tools |
| reduceFeatures | Dimension reduction methods |
| reducePCA | Principal component analysis (PCA) |
| reducePLSDA | Partial least squares-discriminant analysis (PLS-DA) |
| reduceTSNE | t-distributed stochastic neighbor embedding (t-SNE) |
| removeBlankRatio | Feature Filtering based on QC/blank ratio |
| removeFeatures | Feature Filtering methods |
| removeICC | Feature Filtering based on ICC |
| removeMiss | Feature filtering based on proportions of missing values |
| removeRSD | Feature Filtering based on RSD |
| scaleCols | Scale along columns (samples) |
| scaleRows | Scale along rows (features) |
