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This is under active development at the moment, it will implemented in next version 2.0.0
There are several native variant analysis implemented in OpenCGA, these use internal the different internal APIs developed to provide a scalable and high-performance implementation. Occasionally, these analysis can store results in the variant storage to allow users to filter by them, for instance GWAS analysis can be stored and/or indexed for filtering.
The analysis available include:
- Knockout Analysis
- Gene Knockout
- Population stratification (PCA)
- Identity-by-state (IBS)
- Genome wide association studies (GWAS)
- Family-based association analysis (TDT)
You can use external tools using the wrapper analysis. Some tools are being implemented naively and available to all users.
Users can easily extend and customise OpenCGA for their analysis.
Table of Contents:
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