Assigns cell-type labels to clusters from a protein marker panel (multiplexed imaging such as MIBI, CODEX, IMC and CyCIF; mass and flow cytometry; CITE-seq protein), where the labels are judged against an expert reference. Within-dataset normalisation of cluster summaries, lineage first by positive defining markers, subtype only as far as the panel can determine it, marker-poor clusters assigned by exclusion, class-coverage sanity checks, and two independent annotators with adjudication. Use when the output is one label per cluster and the grader is agreement with an expert; for gating single cells in FCS data use flow-cytometry-analysis, and for transcript-based annotation use scanpy or scvi-tools.
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