genSmoothCurveResiduals {monocle} | R Documentation

## Fit smooth spline curves and return the residuals matrix

### Description

This function will fit smooth spline curves for the gene expression dynamics along pseudotime in a gene-wise manner and return the corresponding residuals matrix. This function is build on other functions (fit_models and residualsMatrix)

### Usage

    genSmoothCurveResiduals(
      cds,
      trend_formula = "~sm.ns(Pseudotime, df = 3)",
      relative_expr = T,
      residual_type = "response",
      cores = 1
    )

### Arguments

`cds` | a CellDataSet object upon which to perform this operation
`trend_formula` | a formula string specifying the model formula used in fitting the spline curve for each gene/feature.
`relative_expr` | a logic flag to determine whether or not the relative gene expression should be used
`residual_type` | the response desired, as accepted by VGAM's predict function
`cores` | the number of cores to be used while testing each gene for differential expression

### Value

a data frame containing the data for the fitted spline curves.

[Package monocle version 2.22.0 Index]