A short and long read simulator for next-generation sequencing (NGS) data.
The read simulator can be used for the development or testing of NGS aligners and assemblers.
Use the included config.txt file to customize. Compile using the included Makefile. Then run using:
=======
./srSim config.txtverbose Print detailed runtime information
genomeLength Length of the genome to simulate in nucleotides
genome Genome name to create reads. If the filename exists, a genome will not be created
avgRead Average length for 454 pyrosequencing is 533
coverage Average coverage for the data
machine Machine used to sequence the data (454, illumina)
qvdata QV data set filename to use
mutation Can nucleotides be mutated? (true/false)
qvScore Default QV score for non-mutated simulations
printQV Should the program print a QV score?
reverseComplement Do you want ~50% of the reads to be reverse complimented?
threads Number of threads to utilize
0.1