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GSR: Simulator - SECNVs
| Attribute | Value |
|---|---|
| Title | SECNVs |
| Short Description | SECNVs: A Simulator of Copy Number Variants and Whole-Exome Sequences From Reference Genomes |
| Long Description | SECNVs (Simulator of Exome Copy Number Variants) is a fast, robust and customizable software application for simulating copy number variants and whole-exome sequences from a reference genome. SECNVs is easy to install, implements a wide range of commands to customize simulations, can output multiple samples at once, and incorporates a pipeline to output rearranged genomes, short reads and BAM files in a single command. Variants generated by SECNVs are detected with high sensitivity and precision by tools commonly used to detect copy number variants. |
| Keywords | copy number variation; read depth; simulation; software; whole-exome sequencing |
| Version | 2.7.1 |
| Project Started | 2018 |
| Last Release | 5 years, 11 months ago |
| Homepage | https://github.com/YJulyXing/SECNVs |
| Citations | Xing Y, Dabney AR, Li X, Wang G, Gill CA, Casola C, SECNVs: A Simulator of Copy Number Variants and Whole-Exome Sequences From Reference Genomes., Front Genet, Feb. 21, 2020 [ Abstract, cited in PMC ] |
| GSR Certification | ✔ Accessibility |
| Last evaluated | Aug. 5, 2022 (1136 days ago) |
| 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 | |
| Variations | CNV, |
| Simulation Method | |
| Input | |
| Data Type | Reference genome, |
| File format | |
| Output | |
| Data Type | Genotype or Sequence, |
| Sequencing Reads | |
| 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 | Script-based, |
| Development | |
| Tested Platforms | |
| Language | Python, |
| License | MIT, |
| GSR Certification | Accessibility, Documentation, |
Number of Primary Citations: 1
Number of Non-Primary Citations: 0
No example publication using SECNVs has been provided.
Please propose new citations if you are aware of publications that use this software.