Nature Methods, Published online: 24 May 2024; doi:10.1038/s41592-024-02301-xDimension reduction helps to visualize high-dimensional datasets. These tools should be used thoughtfully and with tuned parameters. Sometimes, these methods take a second thought.

Nature Methods, Published online: 23 May 2024; doi:10.1038/s41592-024-02300-ySometimes their queer identity is one that people set apart from their science identity. Others find unique ways to integrate multiple facets of their identity.

Nature Methods, Published online: 23 May 2024; doi:10.1038/s41592-024-02306-6Author Correction: ‘Ceci n’est pas un embryon?’ The ethics of human embryo model research

Nature Methods, Published online: 23 May 2024; doi:10.1038/s41592-024-02257-yUsing a dependency-aware deep generative framework, spaVAE efficiently models spatially resolved transcriptomics data and advances diverse analysis tasks. Following similar strategies, spaPeakVAE and spaMultiVAE enable spatial ATAC-seq data and spatial multi-omics data modeling...

Nature Methods, Published online: 22 May 2024; doi:10.1038/s41592-024-02267-wSpatial transcriptomics and mRNA splicing measurements encode rich spatiotemporal information for cell states and their transitions. We present a multiscale dynamical system method for reconstructing cell-state-specific dynamics and spatial state transitions. This theory-based...

Nature Methods, Published online: 20 May 2024; doi:10.1038/s41592-024-02273-yMetabuli enhances metagenomic read classification by jointly analyzing DNA and amino acid sequences for specificity and sensitivity, respectively.