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FuzzyVariantsExplorer: Graded exploration of genomic data and fuzzy queries

Falda, M.

2019-10-21 bioinformatics
10.1101/811695 bioRxiv
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SummaryFuzzyVariantExplorer is a web interface and a fuzzy search system for exploring richly annotated genomes in a flexible way. The application allows combining vague constraints in expressive logical queries to retrieve graded sets of genes and their associated variants. Results can be further refined in a visual way by selecting keywords and categories that are extracted from the underlying annotations and weighted with a statistical significance score; keywords can then be clustered using Latent Dirichlet Allocation and explored visually. The system has been applied to a set of Saccharomyces cerevisiae genome annotations and a few variants.\n\nAvailabilityFuzzyVariantExplorer source code is available at the URL https://bitbucket.org/mfalda/fuzzyvariantsexplorer/src/ and has been developed in Scala, TypeScript and R.\n\nContactmarco.falda@unipd.it

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