AutoClassWeb: a simple web interface for Bayesian clustering of omics data

• Published in: BMC research notes Vol. 15; no. 1; pp. 1 - 241
• Main Authors: Poulain, Pierre, Camadro, Jean-Michel
• Format: Journal Article
• Language: English
• Published: London BioMed Central 07-07-2022; BMC
• Subjects: Algorithms; Autoclass; Bayesian; Bayesian analysis; Bioinformatics; Biology; Classification; Cluster analysis; Clustering; Computer Science; Datasets; Genes; Genomics; Machine learning; Proteins; Proteomics; Quality control; Reproducibility; Research Note; New York; United States > US; Clustering; Autoclass; Genomics; Proteomics; Bayesian; Machine learning
• ISSN: 1756-0500; 1756-0500
• DOI: 10.1186/s13104-022-06129-6

Objective Data clustering is a common exploration step in the omics era, notably in genomics and proteomics where many genes or proteins can be quantified from one or more experiments. Bayesian clustering is a powerful unsupervised algorithm that can classify several thousands of genes or proteins. AutoClass C, its original implementation, handles missing data, automatically determines the best number of clusters but is not user-friendly. Results We developed an online tool called AutoClassWeb, which provides an easy-to-use and simple web interface for Bayesian clustering with AutoClass. Input data are entered as TSV files and quality controlled. Results are provided in formats that ease further analyses with spreadsheet programs or with programming languages, such as Python or R. AutoClassWeb is implemented in Python and is published under the 3-Clauses BSD license. The source code is available at https://github.com/pierrepo/autoclassweb along with a detailed documentation.