HashSeq: A simple, scalable, and conservative de Novo Variant caller for 16S rRNA gene data sets

16S rRNA gene sequencing is a common and cost-effective technique for characterization of microbial communities. Recent bioinformatics methods enable high-resolution detection of sequence variants of only one nucleotide difference. In this study, we utilized a very fast HashMap-based approach to det...

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Bibliographic Details
Main Authors:	Fodor, A.A (Author), Fouladi, F. (Author), Young, J.B (Author)
Format:	Article
Language:	English
Published:	American Society for Microbiology 2021
Subjects:	16S rRNA gene sequence variant algorithm Article Bacillus subtilis ecosystem Enterococcus faecalis Escherichia coli feces microflora gene sequence genetic variation human intestine flora Lactobacillus fermentum Listeria monocytogenes locally estimated scatterplot smoothing Microbiome nonhuman nucleotide Pseudomonas aeruginosa random forest RNA 16S Salmonella enterica Sequence variant sequencing error Sequencing error soil microflora Staphylococcus aureus vagina flora
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HashSeq: A simple, scalable, and conservative de Novo Variant caller for 16S rRNA gene data sets

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