scReadSim.Utility.scATAC_bam2countmat_paral_MultiSample

scReadSim.Utility.scATAC_bam2countmat_paral_MultiSample(cells_barcode_file, INPUT_bamfile, outdirectory, n_cores=1)[source]

Multi-sample/replicate implement of scReadSim for constructing count matrices for scATAC-seq BAM file.

Parameters:

  • cells_barcode_file (str) – List of cell barcode files corresponding to the input BAM files.

  • INPUT_bamfile (str) – List of input BAM files (use absolute paths to the BAM files).

  • outdirectory (str) – Specify the working directory of scReadSim for generating intermediate and final output files.

  • n_cores (int (default: 1)) – Specify the number of cores for parallel computing when generating count matrix.