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GSR: Simulator - art_modern
| Attribute | Value |
|---|---|
| Title | art_modern |
| Short Description | A modernized ART for Illumina read simulation. |
| Long Description | High-performance simulation of realistic next-generation sequencing (NGS) data is a must for various algorithm development and benchmarking tasks. However, most existing simulators are either slow or generate data that does not reflect the real-world error profile of simulators. Here we introduce art_modern, a modern re-implementation of the popular ART simulator with enhanced performance and functionality. It can be used for anyone who wants to simulate sequencing data for their own research, like benchmarking of DNA- or RNA-Seq alignment algorithms, test whether the RNA-Seq pipeline built by your lab performs well or perform pressure testing of pipelines on a cluster. This simulator would be best suited for GNU/Linux-based High-End Desktops (HEDTs) with multiple cores and a fast SSD. However, it can also work on laptops or high-performance clusters (HPCs) with only one node. We believe with such simulators, the testing and benchmarking of NGS-related bioinformatics algorithms can be largely accelerated. |
| Keywords | rna-seq; simulation; ngs; illumina-sequencing; dna-seq |
| Version | 1.1.4 |
| Project Started | 2025 |
| Last Release | 2 weeks, 2 days ago |
| Homepage | https://github.com/YU-Zhejian/art_modern/ |
| Citations | |
| GSR Certification | This simulator has not yet been evaluated for GSR Certification. Learn more about or request GSR Certification. |
| Author verification | The basic description provided was derived from a website or publications by the GSR team and has not yet been verified by the simulation author. To modify this entry or add more information, propose changes to this simulator. |
| Attribute Category | Attribute |
|---|---|
| Target | |
| Type of Simulated Data | Sequencing Reads, |
| Variations | |
| Simulation Method | |
| Input | |
| Data Type | Reference genome, |
| File format | |
| Output | |
| Data Type | |
| Sequencing Reads | Illumina, |
| File Format | Fasta or Fastq, SAM or BAM, |
| Sample Type | |
| Phenotype | |
| Trait Type | |
| Determinants | |
| Evolutionary Features | |
| Demographic | |
| Population Size Changes | |
| Gene Flow | |
| Spatiality | |
| Life Cycle | |
| Mating System | |
| Fecundity | |
| Natural Selection | |
| Determinant | |
| Models | |
| Recombination | |
| Mutation Models | |
| Events Allowed | |
| Other | |
| Interface | Command-line, |
| Development | |
| Tested Platforms | Mac OS X, Linux and Unix, |
| Language | C or C++, |
| License | GNU Public License, |
| GSR Certification |
Number of Primary Citations: 0
Number of Non-Primary Citations: 0
No example publication using art_modern has been provided.
Please propose new citations if you are aware of publications that use this software.