Local and relaxed clocks: the best of both worlds

by Mathieu Fourment, Aaron E. Darling
Published 2018-07-01

Evaluating probabilistic programming and fast variational Bayesian inference in phylogenetics

by Mathieu Fourment, Aaron E. Darling
Published 2019-12-01

A method for high precision sequencing of near full-length 16S rRNA genes on an Illumina MiSeq

by Catherine M. Burke, Aaron E. Darling
Published 2016-09-01

bin3C: exploiting Hi-C sequencing data to accurately resolve metagenome-assembled genomes

by Matthew Z. DeMaere, Aaron E. Darling
Published 2019-02-01

progressiveMauve: multiple genome alignment with gene gain, loss and rearrangement.

by Aaron E Darling, Bob Mau, Nicole T Perna
Published 2010-06-01

Deconvoluting simulated metagenomes: the performance of hard- and soft- clustering algorithms applied to metagenomic chromosome conformation capture (3C)

by Matthew Z. DeMaere, Aaron E. Darling
Published 2016-11-01

Dynamics of genome rearrangement in bacterial populations.

by Aaron E Darling, István Miklós, Mark A Ragan
Published 2008-07-01

The impact of migratory flyways on the spread of avian influenza virus in North America

by Mathieu Fourment, Aaron E. Darling, Edward C. Holmes
Published 2017-05-01

Phylogeny of bacterial and archaeal genomes using conserved genes: supertrees and supermatrices.

by Jenna Morgan Lang, Aaron E Darling, Jonathan A Eisen
Published 2013-01-01

Metagenomic sequencing of an in vitro-simulated microbial community.

by Jenna L Morgan, Aaron E Darling, Jonathan A Eisen
Published 2010-04-01

Strainberry: automated strain separation in low-complexity metagenomes using long reads

by Riccardo Vicedomini, Christopher Quince, Aaron E. Darling, Rayan Chikhi
Published 2021-07-01

An integrated pipeline for de novo assembly of microbial genomes.

by Andrew Tritt, Jonathan A Eisen, Marc T Facciotti, Aaron E Darling
Published 2012-01-01

Are protein domains modules of lateral genetic transfer?

by Cheong Xin Chan, Aaron E Darling, Robert G Beiko, Mark A Ragan
Published 2009-01-01

Bacterial communities vary between sinuses in chronic rhinosinusitis patients

by Tom V Joss, Catherine Maree Burke, Bernard J Hudson, Aaron eDarling, Aaron eDarling, Martin eForer, Dagmar eAlber, Ian eCharles, Nicholas W Stow
Published 2016-01-01

Near full-length 16S rRNA gene next-generation sequencing revealed Asaia as a common midgut bacterium of wild and domesticated Queensland fruit fly larvae

by Ania T. Deutscher, Catherine M. Burke, Aaron E. Darling, Markus Riegler, Olivia L. Reynolds, Toni A. Chapman
Published 2018-05-01

PhyloSift: phylogenetic analysis of genomes and metagenomes

by Aaron E. Darling, Guillaume Jospin, Eric Lowe, Frederick A. Matsen IV, Holly M. Bik, Jonathan A. Eisen
Published 2014-01-01

Swabs to genomes: a comprehensive workflow

by Madison I. Dunitz, Jenna M. Lang, Guillaume Jospin, Aaron E. Darling, Jonathan A. Eisen, David A. Coil
Published 2015-05-01

DESMAN: a new tool for de novo extraction of strains from metagenomes

by Christopher Quince, Tom O. Delmont, Sébastien Raguideau, Johannes Alneberg, Aaron E. Darling, Gavin Collins, A. Murat Eren
Published 2017-09-01

Whole Genome Sequencing Analysis of Porcine Faecal Commensal <i>Escherichia coli</i> Carrying Class 1 Integrons from Sows and Their Offspring

by Tiziana Zingali, Cameron J. Reid, Toni A. Chapman, Daniela Gaio, Michael Liu, Aaron E. Darling, Steven P. Djordjevic
Published 2020-06-01

High contiguity genome sequence of a multidrug-resistant hospital isolate of Enterobacter hormaechei

by Leigh G. Monahan, Matthew Z. DeMaere, Max L. Cummins, Steven P. Djordjevic, Piklu Roy Chowdhury, Aaron E. Darling
Published 2019-02-01