Statistical metabolomics tools

ASCA.Calculate | ASCA method (ANOVA-simultaneous component analysis) |

ASCAdata | Example data for ASCA.Calculate |

ASCA.DoPermutationTest | Permutation test for ASCA |

ASCAF | Indicator matrix for ASCA example. |

ASCA.GetPowerSet | Determines the power set of the input set. |

ASCA.GetRowRepeats | Determination of all unique row value combinations |

ASCA.GetSummary | Summary method for ASCA analyses |

ASCA.Plot | Plot ASCA results |

ASCA.PlotLoadings | Loadings plot for a specific factor/interaction of the ASCA |

ASCA.PlotScores | Score plot for a specific factor or interaction of the ASCA |

ASCA.PlotScoresPerLevel | ASCA scores plot with projected data. |

ASCAX | Data matrix for ASCA example |

FoM.Calculate | Calculate best fitting Figure of Merit using method by Van... |

FoMData | Example data for FoM.Calculate |

FoM.FitBinnedSampleRepeatErrors | Fitting step in Figure of Merit calculation. |

FoM.GetIdOrderedMatrix | Order the matrix of samples by their ID |

FoM.OrderAndBinIdByMeans | Bin sample repeats and samples with similar means |

MetStaT.ConcatWithStringPars | Concatenates an array of strings |

MetStaT.ConvertToNumeric | Converts a matrix of strings to numeric values |

MetStaT.ConvertToNumericClasses | Convert value-types in an array or matrix (per column) to... |

MetStaT.CreateFileFromHeaderMatrix | Writes a matrix to file with column names and optionally row... |

MetStaT.CreateFileFromHeaderRowMatrix | Writes a matrix to file with row and column names, and... |

MetStaT.ExportDataToFile | Exports the results of supplied R expressions as text files... |

MetStaT.GetFreqTable | Tabulates the frequency of all unique values. |

MetStaT.GetPcTuples | Obtain all possible pairs of principal components out of a... |

MetStaT.KillAllDevices | Kills all currently active plot windows. |

MetStaT.mldivide | Matrix left hand division using a copy of the 'pracma'... |

MetStaT.mrdivide | Matrix right hand division using a copy of the 'pracma'... |

MetStaT.PlotToFile | Save results of R plotting expressions to files in a zip... |

MetStaT.ReadFileToHeaderMatrix | Reads a data file to a matrix. |

MetStaT.RemoveNaColumns | Removes all columns in a matrix that contain one or more NAs. |

MetStaT.ScalePip | Centering and scaling function |

MetStaT.TrimCustom | Limits an input string to a certain length |

MetStaT.WriteDataObjectToFile | Write data contained within an R object as character output... |

PCA.Calculate | Adapted version of R's base Principal Component Analysis... |

PCA.PlotLoadings | Loadings plot for the results of PCA.Calculate |

PCA.PlotScores | Score plot for the results of PCA.Calculate. |

QStat.Calculate | Global test for metabolic pathway differences between... |

QStat.PermutationTest | Accompanying permutation test for QStat.Calculate |

QStatX | Data matrix for QStat.Calculate example |

QStatY | Matrix for QStat.Calculate example |

RevNetJacobian | Example data for RevNetJacobianMethod |

RevNet.JacobianMethod | Reverse engineering of networks: Penalized Jacobian method |

RevNetTimeLagged | Example data for RevNetTimeLaggedMethod |

RevNet.TimeLaggedMethod | Reverse engineering of networks: Time-lagged correlation... |

RevNetZeroSlopes | Example data for RevNetZeroSlopesMethod |

RevNet.ZeroSlopesMethod | Reverse engineering of networks: zero slopes method |

SteadyState | Example data for RevNetJacobianMethod |

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