NAME

       filter_counts - read a ChIP-seq data file and filters out all read counts

SYNOPSIS

       filter_counts [options] [<] <SGA File>

DESCRIPTION

              - version 1.5.5 where options are:

       -h     Show this help text

       -d     Print debug information

       -f     Feature defining the user-defined regions of interest (default=RMSK)

       -r     Retain Mode on

              The  program  reads  a  ChIP-seq  data file (or from stdin [<]) in SGA format (<SGA
              File>) and filters out all read counts that occur within  user-defined  regions  of
              interest,  such  as Repeat Mask regions (feature=RMSK).  If 'Retain Mode' is on, it
              only retains those lines that are within the user-defined regions,  in  which  case
              the annotation of the user-defined regions is added to the output SGA file.

AUTHOR

        This manpage was written by Andreas Tille for the Debian distribution and
        can be used for any other usage of the program.