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GT-SIMREADS(1) GenomeTools Manual GT-SIMREADS(1)

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>.
07/29/2020 GenomeTools 1.6.1