Mountain View
biomedical and healthCAre Data Discovery Index Ecosystem
help Advanced Search
Title: Hitdb V1.00 For Dada2      
dateReleased:
10-03-2016
privacy:
information not avaiable
aggregation:
instance of dataset
dateCreated:
10-03-2016
refinement:
raw
ID:
doi:10.5281/ZENODO.159205
creators:
Diener, Christian
availability:
available
types:
other
description:
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.  
accessURL: https://doi.org/10.5281/ZENODO.159205
storedIn:
Zenodo
qualifier:
not compressed
format:
HTML
accessType:
landing page
authentication:
none
authorization:
none
abbreviation:
ZENODO
homePage: https://zenodo.org/
ID:
SCR:004129
name:
ZENODO

Feedback?

If you are having problems using our tools, or if you would just like to send us some feedback, please post your questions on GitHub.