NAME

       removeDup - Remove duplicated reads

USAGE

       removeDup [options] -i <input_file> -o <output_file>

       Required arguments:

       -i <string> Name of input file in SAM format.

       -o <string> Name of output SAM file including filtered reads.

       Aptional arguments:

       -r <int>
              Specify  the duplication cutoff. All the reads mapped to a location are removed from the output if
              the number of reads mapped to this location is equal or higher than the cutoff. 10 by default.

       -t <string> A directory storing temporary files generated by the program.

       -c <int>
              The maximum number of reads the input file can have. 40 million by default.

removeDup 1.6.0+dfsg                              November 2017                                     REMOVEDUP(1)