MAST: Phylogenetic Inference with Mixtures Across Sites and Trees
T.K.
Wong,
C.
Cherryh,
A.G.
Rodrigo,
M.W.
Hahn,
B.Q.
Minh,
R.
Lanfear
bioRxiv
(2022)
The Influence of Model Violation on Phylogenetic Inference: A Simulation Study
S.
Naser-Khdour,
B.Q.
Minh,
R.
Lanfear
bioRxiv
(2021)
A test statistic to quantify treelikeness in phylogenetics
C.
Cherryh,
B.Q.
Minh,
R.
Lanfear
bioRxiv
(2021)
Are fleas highly modified Mecoptera? Phylogenomic resolution of Antliophora (Insecta: Holometabola)
K.
Meusemann,
M.
Trautwein,
F.
Friedrich,
R.G.
Beutel,
B.M.
Wiegmann,
A.
Donath,
L.
Podsiadlowski,
M.
Petersen,
O.
Niehuis,
C.
Mayer,
K.M.
Bayless,
S.
Shin,
S.
Liu,
O.
Hlinka,
B.Q.
Minh,
A.
Kozlov,
B.
Morel,
R.S.
Peters,
D.
Bartel,
S.
Grove,
X.
Zhou,
B.
Misof,
D.K.
Yeates
bioRxiv
(2020)
AliSim-HPC: Parallel sequence simulator for phylogenetics
N.
Ly-Trong,
G.M.J.
Barca,
B.Q.
Minh
Bioinformatics
btad540
(2023)
DecentTree: Scalable Neighbour-Joining for the Genomic Era
W.
Wang,
J.
Barbetti,
T.
Wong,
B.
Thornlow,
R.
Corbett-Detig,
Y.
Turakhia,
R.
Lanfear,
B.Q.
Minh
Bioinformatics
btad536
(2023)
Maximum likelihood pandemic-scale phylogenetics
N.
De Maio,
P.
Kalaghatgi,
Y.
Turakhia,
R.
Corbett-Detig,
B.Q.
Minh,
N.
Goldman
Nature Genetics
(2023)
Updated site concordance factors minimize effects of homoplasy and taxon sampling
Y.K.
Mo,
R.
Lanfear,
M.W.
Hahn,
B.Q.
Minh
Bioinformatics
39:btac741
(2023)
2022 Zuckerkandl Prize
D.A.
Liberles,
D.
Alvarez-Ponce,
M.M.
Meyer,
B.Q.
Minh,
J.C.
Silva
Journal of Molecular Evolution
91:1-1
(2023)
AliSim: A fast and versatile phylogenetic sequence simulator for the genomic era
N.
Ly-Trong,
S.
Naser-Khdour,
R.
Lanfear,
B.Q.
Minh
Molecular Biology and Evolution
msac092
(2022)
nQMaker: Estimating Time Nonreversible Amino Acid Substitution Models
C.C.
Dang,
B.Q.
Minh,
H.
McShea,
J.
Masel,
J.E.
James,
L.S.
Vinh,
R.
Lanfear
Systematic Biology
71:1110-1123
(2022)
Assessing Confidence in Root Placement on Phylogenies: An Empirical Study Using Nonreversible Models for Mammals
S.
Naser-Khdour,
B.Q.
Minh,
R.
Lanfear
Systematic Biology
71:959-972
(2022)
Newly Emerged Serotype 1c of Shigella flexneri: Multiple Origins and Changing Drug Resistance Landscape
P.
Parajuli,
B.Q.
Minh,
N.K.
Verma
Genes
11:1042
(2020)
MPBoot: Fast phylogenetic maximum parsimony tree inference and bootstrap approximation
D.T.
Hoang,
L.S.
Vinh,
T.
Flouri,
A.
Stamatakis,
A.
von
Haeseler,
B.Q.
Minh
BMC Evolutionary Biology
18:11
(2018)
Phylogenetic Diversity within Seconds
B.Q.
Minh,
S.
Klaere,
A.
von
Haeseler
Systematic Biology
55:769-773
(2006)
pIQPNNI: Parallel reconstruction of large maximum likelihood phylogenies
B.Q.
Minh,
L.S.
Vinh,
A.
von
Haeseler,
H.A.
Schmidt
Bioinformatics
21:3794-3796
(2005)
pQMaker: Empirically estimating amino acid substitution models in a parallel environment
N.D.
Canh,
C.
Cao Dang,
L.S.
Vinh,
B.Q.
Minh,
D.T.
Hoang
2020 12th International Conference on Knowledge and Systems Engineering (KSE)
324-329
(2020)
A new phylogenetic tree sampling method for maximum parsimony bootstrapping and proof-of-concept implementation
D.T.
Hoang,
L.S.
Vinh,
T.
Flouri,
A.
Stamatakis,
A.
von
Haeseler,
B.Q.
Minh
2016 Eighth International Conference on Knowledge and Systems Engineering (KSE)
1-6
(2016)
Building Population-Specific Reference Genomes: A Case Study of Vietnamese Reference Genome
N.D.
Thanh,
P.T.M.
Trang,
D.T.
Hai,
N.H.A.
Tuan,
L.S.
Quang,
B.Q.
Minh,
D.Q.
Minh,
P.B.
Son,
L.S.
Vinh
2015 Seventh International Conference on Knowledge and Systems Engineering (KSE)
97-102
(2015)
SDA*: A Simple and Unifying Solution to Recent Bioinformatic Challenges for Conservation Genetics
B.Q.
Minh,
S.
Klaere,
A.
von
Haeseler
2010 Second International Conference on Knowledge and Systems Engineering
33-37
(2010)
Split Diversity: Measuring and Optimizing Biodiversity Using Phylogenetic Split Networks
O.
Chernomor,
S.
Klaere,
A.
von
Haeseler,
B.Q.
Minh
Biodiversity Conservation and Phylogenetic Systematics
14:173-195
(2016)
ACOPHY: A Simple and General Ant Colony Optimization Approach for Phylogenetic Tree Reconstruction
H.Q.
Dinh,
B.Q.
Minh*,
H.X.
Huan,
A.
von
Haeseler
(*co-first)
Swarm Intelligence
6234:360-367
(2010)