create_annotation_prompt: Create prompt for cell type annotation

In mLLMCelltype: Cell Type Annotation Using Large Language Models

Create prompt for cell type annotation

Description

Create prompt for cell type annotation

Usage

create_annotation_prompt(input, tissue_name, top_gene_count = 10)

Arguments

input	Either a data frame from Seurat's FindAllMarkers() or a list for each cluster where each element is either a character vector of genes or a list containing a genes field Cluster IDs in named inputs are preserved as-is; unnamed list input receives sequential IDs starting at "0".
tissue_name	Tissue context for the annotation (e.g., 'human PBMC', 'mouse brain')
top_gene_count	Number of top genes to use per cluster when input is from Seurat. Default: 10

Value

A list with prompt (formatted prompt text), expected_count (number of clusters), and gene_lists (cluster ID to marker genes mapping).

mLLMCelltype documentation built on May 11, 2026, 9:06 a.m.