fml_interpret

Pipeline function that sets up and runs a post-hoc interpretation of an ml experiment.
All results are written to rds files.

Provides functionality to perform machine-learning-based modeling in a computation pipeline.
Its functions contain the basic steps of machine-learning-based knowledge discovery workflows,
including model training and optimization, model evaluation, and model testing.
To perform these tasks, the package builds heavily on existing machine-learning packages,
such as 'caret' <https://github.com/topepo/caret/> and associated packages.
The package can train multiple models, optimize model hyperparameters by performing a grid search
or a random search, and evaluates model performance by different metrics.
Models can be validated either on a test data set, or in case of a small sample size
by k-fold cross validation or repeated bootstrapping.
It also allows for 0-Hypotheses generation by performing permutation experiments.
Additionally, it offers methods of model interpretation and item categorization
to identify the most informative features from a high dimensional data space.
The functions of this package can easily be integrated into computation pipelines
(e.g. 'nextflow' <https://www.nextflow.io/>) and hereby improve scalability,
standardization, and re-producibility in the context of machine-learning.

Sebastian Malkusch

flowml

A Backend for a 'nextflow' Pipeline that Performs
Machine-Learning-Based Modeling of Biomedical Data

Kolja Becker

Alexander Peltzer

Neslihan Kaya

Boehringer Ingelheim Ltd. 

fml_interpret function

<dl><dt>parser_inst</dt>
<dd>instance of fml_parser class that comprises command line arguments.</dd></dl>

Arguments

Author

fml_interpret — fml_interpret

<dl>

<dt>parser_inst</dt>
<dd>instance of fml_parser class that comprises command line arguments.</dd>

</dl>

fml_interpret: fml_interpret

Description

Usage

Value

Arguments

Author

Examples