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This is a viral quasispecies reconstruction software for quasispecies assembly problem on mRNA viruses, which is based on a correlation clustering approach and uses semidefinite optimization framework. The software accepts a reference genome, a NGS read set aligned to this reference and set of SNP locations in the form of a vcf file and outputs an optimal set of reconstructed species genomes which describes the underlying viral population.
Features
- Quasispecies
- mRNA virus
- Clustering
- Semidefinite program
- HIV-1 virus
Categories
Bio-InformaticsFollow QSdpR
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