Fig. 3: LLM Annotation performance for the most abundant cell types.
From: Benchmarking cell type and gene set annotation by large language models with AnnDictionary
A Agreement with manual annotation of top-performing LLMs for the ten largest cell types by population size in Tabula Sapiens v2. As in Fig. 2, agreement was assessed at two levels: binary (yes/no, top) and perfect match (bottom), and measured as mean and standard deviation across five replicates. Source data are provided as a Source Data file. For the two large cell types that disagreed with manual annotation the most: LLM annotations for cells manually annotated as (B) basal cells and (D) stromal cells of the ovary; and gene module scores for marker genes of the manually annotated cell type vs. marker genes for the mode LLM annotation: (C) Basal cell and Epithelial cell scores. E Stromal Cell and Granulosa Cell scores.
