GenoGAM-class {GenoGAM} | R Documentation

## GenoGAM class

### Description

This class is designed to represent the model object containing the estimate parameters, arguments and finals fits of the model on a basepair level.

### Slots

`design`

  A mgcv-type formula object.

`fits`

  A data.frame of the fits, the standard error and the first and second derivative of the fits for each experiment.

`positions`

  A GPos object of the positions and seqnames corresponding to the rows in the 'fits' slot.

`smooths`

  A data.frame of knot positions and base function coefficients, in order to reproduce the splines and compute derivatives.

`vcov`

  A list of covariance matrices for each tile fit.

`experimentDesign`

  The design matrix according to which the fitting was performed.

`fitparams`

  Global parameters 'lambda', 'theta', 'Coefficient of Variation' and the 'penalty order' used to compute the model.

`family`

  The distribution family.

`cvparams`

  Parameters used for cross validation.

`settings`

  The global and local settings that were used to compute the model.

`tileSettings`

  A list of settings used to compute tiles.

### Author(s)

Georg Stricker georg.stricker@in.tum.de

[Package GenoGAM version 1.8.0 Index]