Description Usage Arguments Details Value See Also Examples

Build the synthetic rates shaped on a dataset

This method allow the creation of synthesis, degradation and processing rates for a certain number of genes.
The rates are created according to the distributions of the real data-set which is given as an input of the
method. Different proportions of constant varying rates can be set and a new vector of time points can be
provided. This method has to be used before the `makeSimDataset`

method.

1 2 3 4 5 6 |

`object` |
An object of class INSPEcT |

`nGenes` |
A numeric with the number of synthtic genes to be created |

`newTpts` |
A numeric verctor with time points of the synthtic dataset, if NULL the time points of the real dataset will be used |

`probs` |
A numeric vector wich describes the probability of a rate to be constant, shaped like a sigmoid or like an impulse model |

`na.rm` |
A logical that set whether missing values in the real dataset should be removed |

`seed` |
A numeric to obtain reproducible results |

The method `makeSimModel`

generates an object of class INSPEcT_model that stores the parametric functions to genrate clean rates of a time-course. To any of the rates also a noise variance is associate but not used yet. In a typical workflow the output of `makeSimModel`

is the input of the method `makeSimDataset`

, that build the noisy rates and concentrations, given a specified number of replicates.

An object of class INSPEcT_model with synthetic rates

1 2 3 4 5 6 | ```
data('nascentInspObj', package='INSPEcT')
simRates<-makeSimModel(nascentInspObj, 1000, seed=1)
tpts <- simRates@params$tpts
simData2rep_Nascent <- makeSimDataset(object=simRates,tpts=tpts,nRep=3,NoNascent=FALSE,seed=1)
simData2rep_Nascent <- modelRates(simData2rep_Nascent[1:10], seed=1)
``` |

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