Donovan Parks
Donovan Parks
Bioinformatic Consultant
Verified email at uq.edu.au
TitleCited byYear
Introducing mothur: open-source, platform-independent, community-supported software for describing and comparing microbial communities
PD Schloss, SL Westcott, T Ryabin, JR Hall, M Hartmann, EB Hollister, ...
Appl. Environ. Microbiol. 75 (23), 7537-7541, 2009
115442009
CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes
DH Parks, M Imelfort, CT Skennerton, P Hugenholtz, GW Tyson
Genome research 25 (7), 1043-1055, 2015
13992015
STAMP: statistical analysis of taxonomic and functional profiles
DH Parks, GW Tyson, P Hugenholtz, RG Beiko
Bioinformatics 30 (21), 3123-3124, 2014
9682014
Identifying biologically relevant differences between metagenomic communities
DH Parks, RG Beiko
Bioinformatics 26 (6), 715-721, 2010
6312010
Methane metabolism in the archaeal phylum Bathyarchaeota revealed by genome-centric metagenomics
PN Evans, DH Parks, GL Chadwick, SJ Robbins, VJ Orphan, SD Golding, ...
Science 350 (6259), 434-438, 2015
3172015
Recovery of nearly 8,000 metagenome-assembled genomes substantially expands the tree of life
DH Parks, C Rinke, M Chuvochina, PA Chaumeil, BJ Woodcroft, ...
Nature microbiology 2 (11), 1533, 2017
3042017
A standardized bacterial taxonomy based on genome phylogeny substantially revises the tree of life
DH Parks, M Chuvochina, DW Waite, C Rinke, A Skarshewski, ...
Nature biotechnology, 2018
2502018
Evaluation of background subtraction algorithms with post-processing
DH Parks, SS Fels
2008 IEEE Fifth International Conference on Advanced Video and Signal Based …, 2008
2382008
Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea
RM Bowers, NC Kyrpides, R Stepanauskas, M Harmon-Smith, D Doud, ...
Nature biotechnology 35 (8), 725, 2017
1922017
GroopM: an automated tool for the recovery of population genomes from related metagenomes
M Imelfort, D Parks, BJ Woodcroft, P Dennis, P Hugenholtz, GW Tyson
PeerJ 2, e603, 2014
1902014
Methylotrophic methanogenesis discovered in the archaeal phylum Verstraetearchaeota
I Vanwonterghem, PN Evans, DH Parks, PD Jensen, BJ Woodcroft, ...
Nature microbiology 1 (12), 16170, 2016
1572016
An expanded genomic representation of the phylum Cyanobacteria
RM Soo, CT Skennerton, Y Sekiguchi, M Imelfort, SJ Paech, PG Dennis, ...
Genome biology and evolution 6 (5), 1031-1045, 2014
1512014
GenGIS: A geospatial information system for genomic data
DH Parks, M Porter, S Churcher, S Wang, C Blouin, J Whalley, S Brooks, ...
Genome research 19 (10), 1896-1904, 2009
1212009
On the origins of oxygenic photosynthesis and aerobic respiration in Cyanobacteria
RM Soo, J Hemp, DH Parks, WW Fischer, P Hugenholtz
Science 355 (6332), 1436-1440, 2017
1032017
GenGIS 2: Geospatial analysis of traditional and genetic biodiversity, with new gradient algorithms and an extensible plugin framework
DH Parks, T Mankowski, S Zangooei, MS Porter, DG Armanini, DJ Baird, ...
PloS one 8 (7), e69885, 2013
752013
A molecular survey of Australian and North American termite genera indicates that vertical inheritance is the primary force shaping termite gut microbiomes
NA Rahman, DH Parks, DL Willner, AL Engelbrektson, SK Goffredi, ...
Microbiome 3 (1), 5, 2015
742015
Rapid identification of high-confidence taxonomic assignments for metagenomic data
NJ MacDonald, DH Parks, RG Beiko
Nucleic Acids Research, 2012
722012
Comparative genomic analysis of the class Epsilonproteobacteria and proposed reclassification to Epsilonbacteraeota (phyl. nov.)
DW Waite, I Vanwonterghem, C Rinke, DH Parks, Y Zhang, K Takai, ...
Frontiers in microbiology 8, 682, 2017
632017
Classifying short genomic fragments from novel lineages using composition and homology
DH Parks, NJ MacDonald, RG Beiko
BMC bioinformatics 12 (1), 328, 2011
602011
First genomic insights into members of a candidate bacterial phylum responsible for wastewater bulking
Y Sekiguchi, A Ohashi, DH Parks, T Yamauchi, GW Tyson, P Hugenholtz
PeerJ 3, e740, 2015
562015
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Articles 1–20