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>.