as_multiomics

Normalizes outputs that may contain fields like <code>omic.one</code>, <code>omic.two</code>,
<code>list_betas</code>/<code>beta</code>, and <code>list_deltas</code>/<code>delta</code> into a unified structure with
<code>omics</code>, <code>list_betas</code> (per-omic), <code>signal_annotation</code> (samples and features),
and a <code>factor_map</code>. If the input already matches the current schema, it is
returned unchanged.

Provides tools to simulate multi-omics datasets with predefined signal structures. The generated data can be used for testing, validating, and benchmarking integrative analysis methods such as factor models and clustering approaches. This version includes enhanced signal customization, visualization tools (scatter, histogram, 3D), MOFA-based analysis pipelines, PowerPoint export, and statistical profiling of datasets. Designed for both method development and teaching, SUMO supports real and synthetic data pipelines with interpretable outputs. Tini, Giulia, et al (2019) <doi:10.1093/bib/bbx167>.

Bernard Isekah Osang'ir

SUMO

Generating Multi-Omics Datasets for Testing and Benchmarking

Ziv Shkedy

Surya Gupta

Jürgen Claesen

as_multiomics function

<dl><dt>x</dt>
<dd>A list-like legacy simulation object (e.g., produced by
<code>simulate_twoOmicsData()</code> or similar helpers). May also be a list with
element <code>omics</code> that is itself a list of matrices.</dd></dl>

Arguments

Convert legacy objects (e.g., from simulate_twoOmicsData()) to the
current standardized structure used by downstream tools. — as_multiomics

<dl>

<dt>x</dt>
<dd>A list-like legacy simulation object (e.g., produced by
<code>simulate_twoOmicsData()</code> or similar helpers). May also be a list with
element <code>omics</code> that is itself a list of matrices.</dd>

</dl>

as_multiomics: Convert legacy objects (e.g., from `simulate_twoOmicsData()`) to the current standardized structure used by downstream tools.

Description

Usage

Value

Arguments

Details