NAME

       gt-uniq - Filter out repeated feature node graphs in a sorted GFF3 file.

SYNOPSIS

       gt uniq [option ...] [GFF3_file]

OPTIONS

       -v
           be verbose (default: no)

       -o
           redirect output to specified file (default: undefined)

       -gzip
           write gzip compressed output file (default: no)

       -bzip2
           write bzip2 compressed output file (default: no)

       -force
           force writing to output file (default: no)

       -help
           display help and exit

       -version
           display version information and exit

DESCRIPTION

       A depth-first traversal of a feature node graph starts at the top-level feature node (or
       pseudo-node) and explores as far along each branch as possible before backtracking. Let’s
       assume that the feature nodes are stored in a list in the order of their traversal (called
       the “feature node list”).

       Two feature node graphs are considered to be repeated if their feature node lis t (from
       the depth-first traversal) have the same length and each feature node pai r (from both
       lists at the same position) is “similar”.

       Two feature nodes are “similar”, if they have the same sequence ID, feature type, range,
       strand, and phase.

       For such a repeated feature node graph the one with the higher score (of the top-level
       feature) is kept. If only one of the feature node graphs has a define d score, this one is
       kept.

AUTHOR

       Report bugs to <gt-users@genometools.org>.

                                            10/07/2012                                 GT-UNIQ(1)