NAME

       gt-simreads - Simulate sequencing reads from random positions in the input sequence(s).

SYNOPSIS

       gt simreads [option ...] <encseq>

DESCRIPTION

       -num [value]
           desired number of reads (default: undefined)

       -coverage [value]
           desired coverage of the reads (default: undefined)

       -len [value]
           fixed read length (default: undefined)

       -minlen [value]
           minimal read length (default: undefined)

       -maxlen [value]
           maximal read length (default: undefined)

       -distlen [string]
           use read length distribution file (in the output format of the seqstat tool) (default:
           undefined)

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

       -gzip [yes|no]
           write gzip compressed output file (default: no)

       -bzip2 [yes|no]
           write bzip2 compressed output file (default: no)

       -force [yes|no]
           force writing to output file (default: no)

       -p [yes|no]
           show a progress bar (default: no)

       -v [yes|no]
           be verbose (default: no)

       -ds [string]
           output distribution of starting positions to specified file (default: undefined)

       -dl [string]
           output distribution of read lengths to specified file (default: undefined)

       -ss [yes|no]
           simulate reads in forward direction only (default: no)

       -help
           display help for basic options and exit

       -help+
           display help for all options and exit

       -version
           display version information and exit

REPORTING BUGS

       Report bugs to <gonnella@zbh.uni-hamburg.de>.