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let's assume we have 9 samples containing only a cell type and this samples are divided into 3 groups -> healthy, mild, severe
and then I have to run the code which can find tutorial as follows:
bw_paths, bed_paths = export_pseudobulk( input_data = cell_data, variable = "VSN_cell_type", sample_id_col = "VSN_sample_id", chromsizes = chromsizes, bed_path = os.path.join(out_dir, "consensus_peak_calling/pseudobulk_bed_files"), bigwig_path = os.path.join(out_dir, "consensus_peak_calling/pseudobulk_bw_files"), path_to_fragments = fragments_dict, n_cpu = 10, normalize_bigwig = True, temp_dir = "/tmp", split_pattern = "-" )
The purpose is to find any differences between the groups.
Can I use group information in a variable option instead of cell information?
The text was updated successfully, but these errors were encountered:
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let's assume we have 9 samples containing only a cell type and this samples are divided into 3 groups -> healthy, mild, severe
and then I have to run the code which can find tutorial as follows:
The purpose is to find any differences between the groups.
Can I use group information in a variable option instead of cell information?
The text was updated successfully, but these errors were encountered: