cellformer
Cellformer is a term used in bioinformatics to describe transformer-based methods and software frameworks that process cellular data, particularly single-cell genomics and spatial transcriptomics. In this broad sense, cellformer refers to models that learn representations of cells or spots by applying self-attention to gene expression profiles, spatial coordinates, or multimodal measurements. The aim is to capture complex gene–cell relationships to enable tasks such as cell-type annotation, trajectory inference, and cross-dataset integration.
Developers strive for scalable tools capable of handling large cell counts, often using sparse tensors and
Common applications include automatic cell-type labeling in single-cell RNA-seq studies, data integration across batches, trajectory reconstruction,
Limitations include substantial computational demands and the need for annotated data for supervised tasks. Interpreting deep
The term remains generic, with different projects implementing various architectures, objectives, and integrations with existing single-cell