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Aaron Darling
Aaron Darling
Illumina Australia; Professor @ University of Technology Sydney
Verified email at illumina.com - Homepage
Title
Cited by
Cited by
Year
MrBayes 3.2: efficient Bayesian phylogenetic inference and model choice across a large model space
F Ronquist, M Teslenko, P Van Der Mark, DL Ayres, A Darling, S Höhna, ...
Systematic biology 61 (3), 539-542, 2012
206652012
Mauve: multiple alignment of conserved genomic sequence with rearrangements
ACE Darling, B Mau, FR Blattner, NT Perna
Genome research 14 (7), 1394-1403, 2004
40852004
progressiveMauve: multiple genome alignment with gene gain, loss and rearrangement
AE Darling, B Mau, NT Perna
PloS one 5 (6), e11147, 2010
36022010
Insights into the phylogeny and coding potential of microbial dark matter
C Rinke, P Schwientek, A Sczyrba, NN Ivanova, IJ Anderson, JF Cheng, ...
Nature 499 (7459), 431-437, 2013
20142013
The Amphimedon queenslandica genome and the evolution of animal complexity
M Srivastava, O Simakov, J Chapman, B Fahey, MEA Gauthier, T Mitros, ...
Nature 466 (7307), 720-726, 2010
10592010
A5-miseq: an updated pipeline to assemble microbial genomes from Illumina MiSeq data
D Coil, G Jospin, AE Darling
Bioinformatics 31 (4), 587-589, 2015
9332015
Assemblathon 1: a competitive assessment of de novo short read assembly methods
D Earl, K Bradnam, JS John, A Darling, D Lin, J Fass, HOK Yu, V Buffalo, ...
Genome research 21 (12), 2224-2241, 2011
5952011
PhyloSift: phylogenetic analysis of genomes and metagenomes
AE Darling, G Jospin, E Lowe, FA Matsen IV, HM Bik, JA Eisen
PeerJ 2, e243, 2014
590*2014
Critical assessment of metagenome interpretation—a benchmark of metagenomics software
A Sczyrba, P Hofmann, P Belmann, D Koslicki, S Janssen, J Dröge, ...
Nature methods 14 (11), 1063-1071, 2017
5892017
BEAGLE: an application programming interface and high-performance computing library for statistical phylogenetics
DL Ayres, A Darling, DJ Zwickl, P Beerli, MT Holder, PO Lewis, ...
Systematic biology 61 (1), 170-173, 2012
5762012
The design, implementation, and evaluation of mpiBLAST
A Darling, L Carey, W Feng
proceedings of ClusterWorld 2003, 13-15, 2003
5732003
Reordering contigs of draft genomes using the Mauve aligner
AI Rissman, B Mau, BS Biehl, AE Darling, JD Glasner, NT Perna
Bioinformatics 25 (16), 2071-2073, 2009
5422009
Complete Genome Sequence and Comparative Genomics of Shigella flexneri Serotype 2a Strain 2457T
J Wei, MB Goldberg, V Burland, MM Venkatesan, W Deng, G Fournier, ...
Infection and immunity 71 (5), 2775-2786, 2003
4782003
An integrated pipeline for de novo assembly of microbial genomes
A Tritt, JA Eisen, MT Facciotti, AE Darling
Public Library of Science 7 (9), e42304, 2012
4712012
Metagenomic sequencing of an in vitro-simulated microbial community
JL Morgan, AE Darling, JA Eisen
PloS one 5 (4), e10209, 2010
2582010
Dynamics of genome rearrangement in bacterial populations
AE Darling, I Miklós, MA Ragan
PLoS genetics 4 (7), e1000128, 2008
2502008
Nitrogen fixation in a landrace of maize is supported by a mucilage-associated diazotrophic microbiota
A Van Deynze, P Zamora, PM Delaux, C Heitmann, D Jayaraman, ...
PLoS biology 16 (8), e2006352, 2018
2492018
Patterns of gene flow define species of thermophilic Archaea
H Cadillo-Quiroz, X Didelot, NL Held, A Herrera, A Darling, ML Reno, ...
PLoS biology 10 (2), e1001265, 2012
2102012
MetAMOS: a modular and open source metagenomic assembly and analysis pipeline
TJ Treangen, S Koren, DD Sommer, B Liu, I Astrovskaya, B Ondov, ...
Genome biology 14, 1-20, 2013
2092013
ASAP, a systematic annotation package for community analysis of genomes
JD Glasner, P Liss, G Plunkett III, A Darling, T Prasad, M Rusch, A Byrnes, ...
Nucleic Acids Research 31 (1), 147-151, 2003
2002003
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Articles 1–20