Hitdb V1.00 For Dada2

HITdb is a reference taxonomy for Human Intestinal 16S rRNA genes as described in Ritari J, Salojärvi J, Lahti L & de Vos WM. Improved taxonomic assignment of human intestinal 16S rRNA sequences by a dedicated reference database. BMC Genomics. 2015 Dec 12;16(1):1056. doi: 10.1186/s12864-015-2265-y. This is version converted to be used with dada2 (http://benjjneb.github.io/dada2). After extracting your sequence table you can use HITdb via: taxa_hdb <- assignTaxonomy(seqtab_nochim, "hitdb_v1.00.fa.gz") colnames(taxa_hdb) <- c("Phylum", "Class", "Order", "Family", "Genus", "Species") Please be aware that HITdb is specific for intestinal samples, thus it might give you arbitrarily wrong results for non-intestinal samples.

Keywords

FOS: Computer and information sciences, taxonomy, dada2, Bioinformatics, microbiome

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