CODEX2
CODEX2 is a tool for detecting copy number variation (CNV) in high-throughput sequencing data. The CODEX2 algorithm is well suited for studies with and without negative control samples and is sensitive enough to detect rare population frequencies.
Topic
DNA structural variation; Genetic variation; Population genetics;Oncology
Detail
Operation: Visualisation;Genetic variation analysis; Copy number estimation
Software interface: Command-line user interface;Library
Language: R
License: GNU GPL v2
Cost: Free
Version name: 1.3.0
Credit: -
Input: -
Output: -
Contact: Yuchao Jiang yuchaoj@email.unc.edu
Collection: -
Maturity: Stable
Publications
- CODEX2: full-spectrum copy number variation detection by high-throughput DNA sequencing.
- Jiang Y, et al. CODEX2: full-spectrum copy number variation detection by high-throughput DNA sequencing. CODEX2: full-spectrum copy number variation detection by high-throughput DNA sequencing. 2018; 19:202. doi: 10.1186/s13059-018-1578-y
- https://doi.org/10.1186/s13059-018-1578-y
- PMID: 30477554
- PMC: PMC6260772
Download and documentation
Documentation: https://github.com/yuchaojiang/CODEX2/blob/master/README.md
Home page: https://github.com/yuchaojiang/CODEX2
Data: https://github.com/yuchaojiang/CODEX2/tree/master/package/data
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