scrna-rawdata <indir> <outdir> <project> <genome>

Raw Data Processing Using CellRanger

positional arguments:
  indir                input directory
  outdir               output directory
  project              project name
  genome               cellranger genome path

options:
  -h, --help           show this help message and exit
  --dformat DFORMAT    data format: BCL or Fastq
  --index INDEX        barcode csv, header is Lane,Sample,Index
  --fq_path FQ_PATH    fastq csv, header is Lane,Sample,FastqDir
  --multi MULTI        whether to run multi, please set True if using cell multiplex
  --aggr AGGR          whether to run aggr(normalize,reduction,cluster), please set True if using Loupe Viewer