Hervé Pagès

The paper provides an open-source online book for analyzing spatial transcriptomics data using Bioconductor in R, with reproducible code and datasets.

This paper benchmarks five scRNA-seq analysis frameworks on scalability, efficiency, and accuracy using large and small datasets, finding GPU acceleration and optimized algorithms improve performance.

This paper provides an overview of single-cell RNA sequencing analysis using Bioconductor, highlighting its tools and methods for handling high-dimensional data.

The paper identifies two distinct classes of Nucleolus-Associated Domains (NADs) in mouse fibroblasts using deep sequencing and a new tool, showing differences in chromatin features and gene expression.

The paper introduces beachmat, a C++ API for efficient access to single-cell genomics data in various R matrix formats, demonstrating its performance and integration capabilities.