Yomix: an interactive tool for the exploration of low-dimensional embeddings in omics data.

Abstract

In the analysis of diverse omics data, a common and important preliminary step involves computing low-dimensional embeddings using techniques such as PCA, UMAP, t-SNE, or variational autoencoders. These embeddings provide a global overview of sample distributions and their relationships, often serving as the basis for formulating biological hypotheses. To facilitate rapid and intuitive exploration of such low-dimensional embeddings, we developed Yomix, an interactive omics-agnostic visualization and data exploration tool. Yomix enables users to flexibly define subsets of interest using a lasso selection tool, instantly compute their feature signatures, and compare their distributions. Yomix is a fast and efficient tool for interactive exploration of diverse omics datasets. Yomix and its documentation are publicly available at https://github.com/perrin-isir/yomix.