Man pages for WMBEdmands/MetMSLine
an automated and fully integrated pipeline for rapid processing of high-resolution LC-MS metabolomic datasets.
| batchAdj | linear model adjustment for batch |
| blankSub | substract blanks (i.e. negative controls/ background) from... |
| coVarTypeStat | automatic covariate (y-variable) type based univariate... |
| cvCalc | calculate the analytical coefficient of variation from a set... |
| cytoScapeMap | Generate cytoscape map files from peakTable |
| example_Exp_MS1features | example experimental MS1 feature table (retention time subset... |
| hotEllipse | Hotellings T2 statistic and ellipse calculation function... |
| lmResDiff | linear model residual differences by subtraction and... |
| loessFitKfoldCV | loess with n - fold CV function |
| loessSmooth | pooled quality control based signal drift/ attenuation... |
| loessWrapperMod | adapted from 'bisoreg' package |
| logTrans | log transform peak table |
| manhattanPlot | manhattan plot function |
| pcaClustId | Identify clusters in a PCA plot from a list of co-variates... |
| pcaOutId | Identify outliers in a PCA plot based on expansion of... |
| pcaResOut | expand hotellings ellipse from a pcaRes object 'pcaRes' and... |
| plotPcsEx | plot PCA with expanded Hotelling's ellipse adapted from... |
| preProc | preProc - combined pre-processing steps of the MetMSLine... |
| ramClustMod | 'ramclustR' - modified for MetMSLine |
| rtCorrClust | rtCorrClust |
| signNorm | Normalize mass spectral data peak table |
| tableCheckRead | peak/ co-variate table error handling and/ or read from... |
| targMS2csv | Generate target list (.csv) file from subset peak table |
| volcanoPlot | Volcano plot slightly modified from 'VolcanoPlot' from the... |
| zeroFill | zero fill peak table |
