Ginkgo
A web-based tool for the analysis of single-cell copy-number variations (CNVs). It compiles copy number profiles from mapped reads and constructs phylogenetic trees of related cells.
Topic
Genetics;Sequence analysis;DNA structural variation
Detail
Operation: Copy number estimation
Software interface: Web user interface
Language: Javascript;R;C++;PHP
License: BSD 2-Clause "Simplified" License
Cost: Free
Version name: -
Credit: The US National Institutes of Health award (R01-HG006677) to MCS, the US National Science Foundation (DBI-1350041) to MCS, the Cold Spring Harbor Laboratory (CSHL) Cancer Center Support Grant (5P30CA045508), and by the Watson School of Biological Sciences at CSHL through a Training Grant (5T32GM065094) from the US National Institutes of Health.
Input: -
Output: -
Contact: mschatz@cshl.edu
Collection: -
Maturity: -
Publications
- Interactive analysis and assessment of single-cell copy-number variations
- Garvin T, et al. Interactive analysis and assessment of single-cell copy-number variations. Interactive analysis and assessment of single-cell copy-number variations. 2015; 12:1058-60. doi: 10.1038/nmeth.3578
- https://doi.org/10.1038/nmeth.3578
- PMID: 26344043
- PMC: PMC4775251
Download and documentation
Documentation: http://qb.cshl.edu/ginkgo
Home page: http://qb.cshl.edu/ginkgo
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