Comments (2)
I am not sure what you exactly mean with the first question, but if you give multiple clusters (representing one cell type) as input for the receiver cell type, it will take into account that the receiver cell type consists of multiple clusters. It will do so by calculating expressed genes for each of the clusters separately, and then pooling these expressed genes per cluster to get the entire set of expressed genes for the receiver cell type.
Error in evaluate_target_prediction(setting, ligand_target_matrix, ligands_position) : all genes have same response --> this means that in your 'setting' all genes are considered to be differentially expressed (DE) or all genes are considered to be background, whereas some genes should be DE, and the rest background.
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by your answer i can tell you understood my question. thanks a lot!
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