NAME

       cnvkit_import-seg - Convert a SEG file to CNVkit .cns files.

DESCRIPTION

       usage: cnvkit import-seg [-h] [-c CHROMOSOMES] [-p PREFIX] [--from-log10]

       [-d DIRECTORY]
              segfile

   positional arguments:
       segfile
              Input file in SEG format. May contain multiple samples.

   optional arguments:
       -h, --help
              show this help message and exit

       -c CHROMOSOMES, --chromosomes CHROMOSOMES
              Mapping  of  chromosome  indexes  to  names.  Syntax: "from1:to1,from2:to2". Or use
              "human" for the preset: "23:X,24:Y,25:M".

       -p PREFIX, --prefix PREFIX
              Prefix to add to chromosome names (e.g 'chr' to rename  '8'  in  the  SEG  file  to
              'chr8' in the output).

       --from-log10
              Convert base-10 logarithm values in the input to base-2 logs.

       -d DIRECTORY, --output-dir DIRECTORY
              Output directory name.