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Description
Hello! I am trying to am trying to run CytoTalk to find out cell-cell interactions in my data that I obtained using cellphonedb.
Hence, I have two matrices: one with the counts (format_counts.txt) and another with the metadata (forma_meta.txt) that maps the cell types to columns.
The count matrix contains 5790 cells (columns) and 10570 genes (rows), along with the corresponding 5790 cells in the metadata file.
I am loading the data as follows and when I am trying to run run_cytotalk I get this error:
fpath_mat <- "format_counts.txt" fpath_meta <- "format_meta.txt" lst_scrna <- CytoTalk::read_matrix_with_meta(fpath_mat, fpath_meta) table(lst_scrna$cell_types) type_a <- "Inh_1" type_b <- "Inh_1" results <- CytoTalk::run_cytotalk(lst_scrna, type_a, type_b) <img width="593" alt="CytoTalk_Error" src="https://user-images.githubusercontent.com/25987242/160450033-5f7d760f-b916-4923-b8a7-d1b9c2445502.png">
Could you please help me figure out what is going on?
