moiraine: an R package to construct reproducible pipelines for the application and comparison of multi-omics...

Area of Science:

• Bioinformatics
• Computational Biology
• Genomics

Background:

• Numerous statistical methods for multi-omics data integration exist.
• Existing software tools lack standardized data input/output formats, complicating comparisons.
• This heterogeneity hinders efficient application and benchmarking of integration tools.

Purpose of the Study:

• To develop a standardized R package for reproducible multi-omics integration pipelines.
• To facilitate pre-processing, formatting, and integration of multi-omics datasets.
• To enable simplified interpretation, evaluation, and comparison of different integration methods.

Main Methods:

• Development of the moiraine R package.
• Implementation of standardized data pre-processing and formatting.
• Integration of visualization tools for results interpretation.
• Facilitation of comparative analysis across different integration algorithms.

Main Results:

• The moiraine package enables reproducible multi-omics integration.
• It automates data formatting and simplifies result interpretation with visualizations.
• Users can easily compare results from diverse integration tools to assess robustness.

Conclusions:

• moiraine enhances the usability and comparability of multi-omics integration tools.
• The package promotes reproducible research in multi-omics data analysis.
• It provides a flexible framework for exploring and validating multi-omics integration strategies.