Short Read Simulators

With the popularity of next-generation sequencing (NGS) technologies, many NGS read simulators have been developed. Currently, many of the popular short read simulators are designed to simulate reads mimicking many Illumina, 454 and SOLiD platforms. Listed below are some popular short read simulators. Links to their publications are provided as well.

1. MetaSim
2. wgsim
3. SimNGS
4. ArtificialFastqGenerator
5. InSilicoSeq

Long Read Simulators

With the advancements in sequencing technologies, scientists have shown an increasing interest in using third-generation sequencing (TGS) technologies. Currently, many of the popular long read simulators are designed to simulate reads mimicking the two main TGS technologies; (1) Pacific Biosciences (PacBio) and (2) Oxford Nanopore (ONT). Listed below are some of the popular and recently introduced PacBio and ONT simulators. Links to their publications are provided as well.

PacBio Simulators

1. PBSIM
2. LongISLND
3. SimLoRD
4. NPBSS
5. PaSS

ONT Simulators

1. NanoSim
2. Nanopore SimulatION
3. DeepSimulator
4. DeepSimulator1.5