ART 20160605 – Next-generation Sequencing Read Simulator

ART 20160605

:: DESCRIPTION

ART is a set of simulation tools to generate synthetic next-generation sequencing reads. ART simulates sequencing reads by mimicking real sequencing process with empirical error models or quality profiles summarized from large recalibrated sequencing data.

::DEVELOPER

ART Team

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Windows/Linux / MacOsX

:: DOWNLOAD

 ART 

:: MORE INFORMATION

Citation:

Weichun Huang, Leping Li, Jason R Myers, and Gabor T Marth.
ART: a next-generation sequencing read simulator
Bioinformatics (2011) doi:10.1093/bioinformatics/btr708

Mason 0.1.2 – Read Simulator software for Illumina, 454 and Sanger reads

Mason 0.1.2

:: DESCRIPTION

Mason is a read simulator software for Illumina, 454 and Sanger reads. Its features include position specific error rates and base quality values. For Illumina reads, we give a comprehensive analysis with empirical data for the error and quality model. For the other technologies, we use models from the literature. It has been written with performance in mind and can sample reads from large genomes.

::DEVELOPER

Manuel Holtgrewe

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux / MacOsX /Windows

:: DOWNLOAD

 Mason

:: MORE INFORMATION

Citation

Holtgrewe, M. (2010).
Mason – a read simulator for second generation sequencing data.
Technical Report TR-B-10-06, Institut für Mathematik und Informatik, Freie Universität Berlin.

CuReSim / CuReSimEval – Customized Read Simulator / Evaluate Mapping Quality of CuReSim Simulated Reads

CuReSim 1.2 / CuReSimEval 1.1

:: DESCRIPTION

CuReSim is a customized tool which generates synthetic New-Generation Sequencing reads, supporting read simulation for major letter-base sequencing platforms.

CuReSimEval is a tool to evaluate the mapping quality of the CuReSim simulated reads.

::DEVELOPER

CuReSim team

:: SCREENSHOTS

N/A

::REQUIREMENTS

  • Windows/ Linux
  • Java

:: DOWNLOAD

 CuReSim , CuReSimEval

:: MORE INFORMATION

Citation

BMC Genomics. 2014 Apr 5;15:264. doi: 10.1186/1471-2164-15-264.
Comparison of mapping algorithms used in high-throughput sequencing: application to Ion Torrent data.
Caboche S1, Audebert C, Lemoine Y, Hot D.