metagenomeFeatures: an R package for working with 16S rRNA reference databases and marker-gene survey feature data.
Bioinformatics
; 35(19): 3870-3872, 2019 10 01.
Article
em En
| MEDLINE
| ID: mdl-30821316
ABSTRACT
SUMMARY:
We developed the metagenomeFeatures R Bioconductor package along with annotation packages for three 16S rRNA databases (Greengenes, RDP and SILVA) to facilitate working with 16S rRNA databases and marker-gene survey feature data. The metagenomeFeatures package defines two classes, MgDb for working with 16S rRNA sequence databases, and mgFeatures for marker-gene survey feature data. The associated annotation packages provide a consistent interface to the different databases facilitating database comparison and exploration. The mgFeatures-class represents a crucial step in the development of a common data structure for working with 16S marker-gene survey data in R. AVAILABILITY AND IMPLEMENTATION https//bioconductor.org/packages/release/bioc/html/metagenomeFeatures.html. SUPPLEMENTARY INFORMATION Supplementary material is available at Bioinformatics online.
Texto completo:
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Base de dados:
MEDLINE
Assunto principal:
Software
/
Bases de Dados de Ácidos Nucleicos
Idioma:
En
Revista:
Bioinformatics
Assunto da revista:
INFORMATICA MEDICA
Ano de publicação:
2019
Tipo de documento:
Article
País de afiliação:
Estados Unidos