example_predictions

An example output from use of the function get_predictions(), applied to the pre-loaded datasets example_refit_range and example_tables$val .

datasets

Implementation of the methodology proposed in 'Data-driven design of targeted gene panels for estimating immunotherapy biomarkers', Bradley and Cannings (2021) <arXiv:2102.04296>. This package allows the user to fit generative models of mutation from an annotated mutation dataset, and then further to produce tunable linear estimators of exome-wide biomarkers. It also contains functions to simulate mutation annotated format (MAF) data, as well as to analyse the output and performance of models.

Jacob R. Bradley

ICBioMark

Data-Driven Design of Targeted Gene Panels for Estimating
Immunotherapy Biomarkers

Timothy I. Cannings

example_predictions function

A list with two entries:<dl class="dl-horizontal">
<dt>predictions</dt><dd>A a matrix containing a row for each sample and a column for each panel.</dd>
<dt>panel_lengths</dt><dd>A vector giving total panel lengths.</dd>
</dl>

Format

Example Predictions — example_predictions

A list with two entries:<dl class='dl-horizontal'>
<dt>predictions</dt><dd>A a matrix containing a row for each sample and a column for each panel.</dd>
<dt>panel_lengths</dt><dd>A vector giving total panel lengths.</dd>
</dl>

example_predictions: Example Predictions

Description

Usage

Arguments

Format