A Chao

A Shchipkova

D Dick

FS Lima

H Löe

I Letunic

J Lindhe

JG Caporaso

JH Shaw

MR Group

MR Mason

P Hugenholtz

PD Marsh

PS Kumar

S Huja

SE Dowd

SF Altschul

SL Tomar

SM Dabdoub

T Coenye

TZ DeSantis

Y Vázquez-Baeza

Scientific Reports

AbstractThe 16S rRNA gene is widely used for taxonomic profiling of microbial ecosystems; and recent advances in sequencing chemistry have allowed extremely large numbers of sequences to be generated from minimal amounts of biological samples. Analysis speed and resolution of data to species-level taxa are two important factors in large-scale explorations of complex microbiomes using 16S sequencing. We present here new software, Phylogenetic Tools for Analysis of Species-level Taxa (PhyloToAST), that completely integrates with the QIIME pipeline to improve analysis speed, reduce primer bias (requiring two sequencing primers), enhance species-level analysis and add new visualization tools. The code is free and open source and can be accessed at http://phylotoast.org.</jats:p

Shareef M. Dabdoub

Megan L. Fellows

Akshay D. Paropkari

Matthew R. Mason

Sarandeep S. Huja

Alexandra A. Tsigarida

Purnima S. Kumar

Crossref

PhyloToAST: Bioinformatics tools for species-level analysis and visualization of complex microbial datasets

PhyloToAST: Bioinformatics tools for species-level analysis and visualization of complex microbial datasets

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