init: A raw API for initializing model parameters.

In FIT: Transcriptomic Dynamics Models in Field Conditions

Description

Note: use train() unless the user is willing to accept breaking API changes in the future.

Usage

init(expression, weight, attribute, weather, recipe)

Arguments

expression	An object that represents gene expression data. The object can be created from a dumped/saved dataframe of size nsamples * ngenes using FIT::load.expression(). (At the moment it is an instance of a hidden class IO$Attribute, but this may be subject to change.)
weight	A matrix of size nsamples * ngenes that during regression penalizes errors from each sample using the formula sum_{s in samples} (weight_s) (error_s)^2. Note that, unlike for FIT::train(), this argument is NOT optional.
attribute	An object that represents the attributes of a microarray/RNA-seq data. The object can be created from a dumped/saved dataframe of size nsamples * nattributes using FIT::load.attribute(). (At the moment it is an instance of a hidden class IO$Attribute, but this may be subject to change.)
weather	An object that represents actual or hypothetical weather data with which the training of models are done. The object can be created from a dumped/saved dataframe of size ntimepoints * nfactors using FIT::load.weather(). (At the moment it is an instance of a hidden class IO$Weather, but this may be subject to change.)
recipe	An object that represents the training protocol of models. A recipe can be created using FIT::make.recipe().

Value

A collection of models whose parameters are set by using the 'init' method in the argument recipe.

FIT documentation built on May 2, 2019, 3:38 p.m.