WGSIM(1) | User Commands | WGSIM(1) |

# NAME¶

wgsim - short read simulator

# SYNOPSIS¶

**wgsim** [*options*] *<in.ref.fa>
<out.read1.fq> <out.read2.fq>*

# OPTIONS¶

**-e**FLOAT- base error rate [0.020]
**-d**INT- outer distance between the two ends [500]
**-s**INT- standard deviation [50]
**-N**INT- number of read pairs [1000000]
**-1**INT- length of the first read [70]
**-2**INT- length of the second read [70]
**-r**FLOAT- rate of mutations [0.0010]
**-R**FLOAT- fraction of indels [0.15]
**-X**FLOAT- probability an indel is extended [0.30]
**-S**INT- seed for random generator [-1]
**-h**- haplotype mode

# AUTHOR¶

The software was written by Heng Li <lh3@sanger.ac.uk>

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

December 2015 | wgsim 1.2 |