-
1
-
-
0031253343
-
Investigating phylogenetic relationships within the Apicomplexa using sequence data: the search for homology
-
Barta J.R. Investigating phylogenetic relationships within the Apicomplexa using sequence data: the search for homology. Methods 1997, 13:81-88.
-
(1997)
Methods
, vol.13
, pp. 81-88
-
-
Barta, J.R.1
-
2
-
-
0001762078
-
Uninformative bootstrapping
-
Carpenter J.M. Uninformative bootstrapping. Cladistics 1996, 12:177-181.
-
(1996)
Cladistics
, vol.12
, pp. 177-181
-
-
Carpenter, J.M.1
-
3
-
-
84859923871
-
A new subfamilial and tribal classification of the pantropical flowering plant family Annonaceae informed by molecular phylogenetics
-
Chatrou L.W., Pirie M.D., Erkens R.H.J., Couvreur T.L.P., Neubig K.M., Abbott J.R., Mols J.B., Maas J.W., Saunders R.M.K., Chase M.W. A new subfamilial and tribal classification of the pantropical flowering plant family Annonaceae informed by molecular phylogenetics. Bot. J. Linn. Soc. 2012, 169:5-40.
-
(2012)
Bot. J. Linn. Soc.
, vol.169
, pp. 5-40
-
-
Chatrou, L.W.1
Pirie, M.D.2
Erkens, R.H.J.3
Couvreur, T.L.P.4
Neubig, K.M.5
Abbott, J.R.6
Mols, J.B.7
Maas, J.W.8
Saunders, R.M.K.9
Chase, M.W.10
-
4
-
-
77954521496
-
Phylogeny of Celastraceae subfamily Salacioideae and tribe Lophopetaleae inferred from morphological characters and nuclear and plastid genes
-
Coughenour J.M., Simmons M.P., Lombardi J.A., Cappa J.J. Phylogeny of Celastraceae subfamily Salacioideae and tribe Lophopetaleae inferred from morphological characters and nuclear and plastid genes. Syst. Bot. 2010, 35:358-366.
-
(2010)
Syst. Bot.
, vol.35
, pp. 358-366
-
-
Coughenour, J.M.1
Simmons, M.P.2
Lombardi, J.A.3
Cappa, J.J.4
-
5
-
-
79955076551
-
Phylogeny of Celastraceae subfamily Hippocrateoideae inferred from morphological characters and nuclear and plastid genes
-
Coughenour J.M., Simmons M.P., Lombardi J.A., Yakobson K., Archer R.H. Phylogeny of Celastraceae subfamily Hippocrateoideae inferred from morphological characters and nuclear and plastid genes. Mol. Phylogenet. Evol. 2011, 59:320-330.
-
(2011)
Mol. Phylogenet. Evol.
, vol.59
, pp. 320-330
-
-
Coughenour, J.M.1
Simmons, M.P.2
Lombardi, J.A.3
Yakobson, K.4
Archer, R.H.5
-
6
-
-
0042069655
-
Comparing bootstrap and posterior probability values in the four-taxon case
-
Cummings M.P., Handley S.A., Myers D.S., Reed D.L., Rokas A., Winka K. Comparing bootstrap and posterior probability values in the four-taxon case. Syst. Biol. 2003, 52:477-487.
-
(2003)
Syst. Biol.
, vol.52
, pp. 477-487
-
-
Cummings, M.P.1
Handley, S.A.2
Myers, D.S.3
Reed, D.L.4
Rokas, A.5
Winka, K.6
-
7
-
-
0032099263
-
Data decisiveness, data quality, and incongruence in phylogenetic analysis: an example from the monocotyledons using mitochondrial atpA sequences
-
Davis J.I., Simmons M.P., Stevenson D.W., Wendel J.F. Data decisiveness, data quality, and incongruence in phylogenetic analysis: an example from the monocotyledons using mitochondrial atpA sequences. Syst. Biol. 1998, 47:282-310.
-
(1998)
Syst. Biol.
, vol.47
, pp. 282-310
-
-
Davis, J.I.1
Simmons, M.P.2
Stevenson, D.W.3
Wendel, J.F.4
-
8
-
-
33751012343
-
The limits of conventional cladistic analysis
-
Oxford University Press, Oxford, V.A. Albert (Ed.)
-
Davis J.I., Nixon K.C., Little D.P. The limits of conventional cladistic analysis. Parsimony, Phylogeny, and Genomics 2005, 119-147. Oxford University Press, Oxford. V.A. Albert (Ed.).
-
(2005)
Parsimony, Phylogeny, and Genomics
, pp. 119-147
-
-
Davis, J.I.1
Nixon, K.C.2
Little, D.P.3
-
9
-
-
85011341260
-
Contrasting patterns of support among plastid genes and genomes for major clades of the monocotyledons
-
Cambridge University Press, Cambridge, P. Wilkin (Ed.)
-
Davis J.I., McNeal J.R., Barrett C.F., Chase M.W., Cohen J.I., Duvall M.R., Givnish T.J., Graham S.W., Petersen G., Pires J.C., Seberg O., Stevenson D.W., Leebens-Mack J.H. Contrasting patterns of support among plastid genes and genomes for major clades of the monocotyledons. Early Events in Monocot Evolution 2013, 315-349. Cambridge University Press, Cambridge. P. Wilkin (Ed.).
-
(2013)
Early Events in Monocot Evolution
, pp. 315-349
-
-
Davis, J.I.1
McNeal, J.R.2
Barrett, C.F.3
Chase, M.W.4
Cohen, J.I.5
Duvall, M.R.6
Givnish, T.J.7
Graham, S.W.8
Petersen, G.9
Pires, J.C.10
Seberg, O.11
Stevenson, D.W.12
Leebens-Mack, J.H.13
-
10
-
-
74949137624
-
Patterns of macroevolution among primates inferred from a supermatrix of mitochondrial and nuclear DNA
-
Fabre P.-H., Rodrigues A., Douzery E.J.P. Patterns of macroevolution among primates inferred from a supermatrix of mitochondrial and nuclear DNA. Mol. Phylogenet. Evol. 2009, 53:808-825.
-
(2009)
Mol. Phylogenet. Evol.
, vol.53
, pp. 808-825
-
-
Fabre, P.-H.1
Rodrigues, A.2
Douzery, E.J.P.3
-
11
-
-
0030417648
-
Parsimony jackknifing outperforms neighbor-joining
-
Farris J.S., Albert V.A., Källersjö M., Lipscomb D., Kluge A.G. Parsimony jackknifing outperforms neighbor-joining. Cladistics 1996, 12:99-124.
-
(1996)
Cladistics
, vol.12
, pp. 99-124
-
-
Farris, J.S.1
Albert, V.A.2
Källersjö, M.3
Lipscomb, D.4
Kluge, A.G.5
-
12
-
-
84959848780
-
Maximum likelihood and minimum-steps methods for estimating evolutionary trees from data on discrete characters
-
Felsenstein J. Maximum likelihood and minimum-steps methods for estimating evolutionary trees from data on discrete characters. Syst. Zool. 1973, 22:240-249.
-
(1973)
Syst. Zool.
, vol.22
, pp. 240-249
-
-
Felsenstein, J.1
-
13
-
-
84959798530
-
Cases in which parsimony or compatibility methods will be positively misleading
-
Felsenstein J. Cases in which parsimony or compatibility methods will be positively misleading. Syst. Zool. 1978, 27:401-410.
-
(1978)
Syst. Zool.
, vol.27
, pp. 401-410
-
-
Felsenstein, J.1
-
14
-
-
0000461280
-
Confidence limits on phylogenies: an approach using the bootstrap
-
Felsenstein J. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 1985, 39:783-791.
-
(1985)
Evolution
, vol.39
, pp. 783-791
-
-
Felsenstein, J.1
-
15
-
-
84959747425
-
Toward defining the course of evolution: minimum change for a specific tree topology
-
Fitch W.M. Toward defining the course of evolution: minimum change for a specific tree topology. Syst. Zool. 1971, 20:406-416.
-
(1971)
Syst. Zool.
, vol.20
, pp. 406-416
-
-
Fitch, W.M.1
-
16
-
-
78349298734
-
Branch support via resampling: an empirical study
-
Freudenstein J.V., Davis J.I. Branch support via resampling: an empirical study. Cladistics 2010, 26:643-656.
-
(2010)
Cladistics
, vol.26
, pp. 643-656
-
-
Freudenstein, J.V.1
Davis, J.I.2
-
17
-
-
0036698966
-
Resolution of a supertree/supermatrix paradox
-
Gatesy J., Matthee C., DeSalle R., Hayashi C. Resolution of a supertree/supermatrix paradox. Syst. Biol. 2002, 51:652-664.
-
(2002)
Syst. Biol.
, vol.51
, pp. 652-664
-
-
Gatesy, J.1
Matthee, C.2
DeSalle, R.3
Hayashi, C.4
-
18
-
-
0033499153
-
Analyzing large data sets in reasonable times: solutions for composite optima
-
Goloboff P.A. Analyzing large data sets in reasonable times: solutions for composite optima. Cladistics 1999, 15:415-428.
-
(1999)
Cladistics
, vol.15
, pp. 415-428
-
-
Goloboff, P.A.1
-
19
-
-
33644608262
-
Parsimony and Bayesian phylogenetics
-
Oxford University Press, Oxford, V.A. Albert (Ed.)
-
Goloboff P.A., Pol D. Parsimony and Bayesian phylogenetics. Parsimony, Phylogeny, and Genomics 2005, 148-159. Oxford University Press, Oxford. V.A. Albert (Ed.).
-
(2005)
Parsimony, Phylogeny, and Genomics
, pp. 148-159
-
-
Goloboff, P.A.1
Pol, D.2
-
20
-
-
0041738995
-
Improvements to resampling measures of group support
-
Goloboff P.A., Farris J.S., Källersjö M., Oxelman B., Ramírez M.J., Szumik C.A. Improvements to resampling measures of group support. Cladistics 2003, 19:324-332.
-
(2003)
Cladistics
, vol.19
, pp. 324-332
-
-
Goloboff, P.A.1
Farris, J.S.2
Källersjö, M.3
Oxelman, B.4
Ramírez, M.J.5
Szumik, C.A.6
-
21
-
-
45749124657
-
TNT, a free program for phylogenetic analysis
-
Goloboff P.A., Farris J.S., Nixon K.C. TNT, a free program for phylogenetic analysis. Cladistics 2008, 24:774-786.
-
(2008)
Cladistics
, vol.24
, pp. 774-786
-
-
Goloboff, P.A.1
Farris, J.S.2
Nixon, K.C.3
-
22
-
-
77950806408
-
New algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0
-
Guindon S., Dufayard J.-F., Lefort V., Anisimova M., Hordijk W., Gascuel O. New algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0. Syst. Biol. 2010, 59:307-321.
-
(2010)
Syst. Biol.
, vol.59
, pp. 307-321
-
-
Guindon, S.1
Dufayard, J.-F.2
Lefort, V.3
Anisimova, M.4
Hordijk, W.5
Gascuel, O.6
-
23
-
-
84873461215
-
Phylogeny of the Asian Hedyotis-Oldenlandia complex (Spermacoceae, Rubiaceae): evidence for high levels of polyphyly and parallel evolution of diplophragmous capsules
-
Guo X., Wang R.-J., Simmons M.P., But P.P.-H., Yu J. Phylogeny of the Asian Hedyotis-Oldenlandia complex (Spermacoceae, Rubiaceae): evidence for high levels of polyphyly and parallel evolution of diplophragmous capsules. Mol. Phylogenet. Evol. 2013, 67:110-122.
-
(2013)
Mol. Phylogenet. Evol.
, vol.67
, pp. 110-122
-
-
Guo, X.1
Wang, R.-J.2
Simmons, M.P.3
But, P.P.-H.4
Yu, J.5
-
24
-
-
83655167224
-
Supermatrices, supertrees and serendipitous scaffolding: inferring a well-resolved, genus-level phylogeny of Styphelioideae (Ericaceae) despite missing data
-
Johnson K.A., Holland B.R., Heslewood M.M., Crayn D.M. Supermatrices, supertrees and serendipitous scaffolding: inferring a well-resolved, genus-level phylogeny of Styphelioideae (Ericaceae) despite missing data. Mol. Phylogenet. Evol. 2012, 62:146-158.
-
(2012)
Mol. Phylogenet. Evol.
, vol.62
, pp. 146-158
-
-
Johnson, K.A.1
Holland, B.R.2
Heslewood, M.M.3
Crayn, D.M.4
-
25
-
-
0000732090
-
Evolution of protein molecules
-
Academic Press, New York
-
Jukes T.H., Cantor C.R. Evolution of protein molecules. Mammalian Protein Metabolism 1969, vol. 3:21-132. Academic Press, New York.
-
(1969)
Mammalian Protein Metabolism
, vol.3
, pp. 21-132
-
-
Jukes, T.H.1
Cantor, C.R.2
-
26
-
-
45949107473
-
Recent developments in the MAFFT multiple sequence alignment program
-
Katoh K., Toh H. Recent developments in the MAFFT multiple sequence alignment program. Brief. Bioinform. 2008, 9:286-298.
-
(2008)
Brief. Bioinform.
, vol.9
, pp. 286-298
-
-
Katoh, K.1
Toh, H.2
-
27
-
-
84963036271
-
Quantitative phyletics and the evolution of Anurans
-
Kluge A.G., Farris J.S. Quantitative phyletics and the evolution of Anurans. Syst. Zool. 1969, 18:1-32.
-
(1969)
Syst. Zool.
, vol.18
, pp. 1-32
-
-
Kluge, A.G.1
Farris, J.S.2
-
28
-
-
67449163699
-
The effect of ambiguous data on phylogenetic estimates obtained by maximum likelihood and Bayesian inference
-
Lemmon A.R., Brown J.M., Stanger-Hall K., Lemmon E.M. The effect of ambiguous data on phylogenetic estimates obtained by maximum likelihood and Bayesian inference. Syst. Biol. 2009, 58:130-145.
-
(2009)
Syst. Biol.
, vol.58
, pp. 130-145
-
-
Lemmon, A.R.1
Brown, J.M.2
Stanger-Hall, K.3
Lemmon, E.M.4
-
29
-
-
0003766436
-
MacClade: Analysis of Phylogeny and Character Evolution
-
Version 4.03. Sunderland, Sinauer.
-
Maddison, D.R., Maddison, W.P., 2001. MacClade: Analysis of Phylogeny and Character Evolution, Version 4.03. Sunderland, Sinauer.
-
(2001)
-
-
Maddison, D.R.1
Maddison, W.P.2
-
31
-
-
77958144939
-
A phylogenomic approach to resolve the arthropod tree of life
-
Meusemann K., von Reumond B.M., Simon S., Roeding F., Strauss S., Kuck P., Ebersberger I., Walzl M., Pass G., Breuers S., Achter V., von Haeseler A., Burmester T., Hadrys M., Wagele J.W., Misof B. A phylogenomic approach to resolve the arthropod tree of life. Mol. Biol. Evol. 2010, 27:2451-2464.
-
(2010)
Mol. Biol. Evol.
, vol.27
, pp. 2451-2464
-
-
Meusemann, K.1
von Reumond, B.M.2
Simon, S.3
Roeding, F.4
Strauss, S.5
Kuck, P.6
Ebersberger, I.7
Walzl, M.8
Pass, G.9
Breuers, S.10
Achter, V.11
von Haeseler, A.12
Burmester, T.13
Hadrys, M.14
Wagele, J.W.15
Misof, B.16
-
32
-
-
0033504552
-
The parsimony ratchet, a new method for rapid parsimony analysis
-
Nixon K.C. The parsimony ratchet, a new method for rapid parsimony analysis. Cladistics 1999, 15:407-414.
-
(1999)
Cladistics
, vol.15
, pp. 407-414
-
-
Nixon, K.C.1
-
33
-
-
0030378088
-
On consensus, collapsibility, and clade concordance
-
Nixon K.C., Carpenter J.M. On consensus, collapsibility, and clade concordance. Cladistics 1996, 12:305-321.
-
(1996)
Cladistics
, vol.12
, pp. 305-321
-
-
Nixon, K.C.1
Carpenter, J.M.2
-
34
-
-
0002272008
-
Extinction and the origin of species
-
Columbia University Press, New York, Q.D. Wheeler, M. Novacek (Eds.)
-
Nixon K.C., Wheeler Q.D. Extinction and the origin of species. Extinction and Phylogeny 1991, 119-143. Columbia University Press, New York. Q.D. Wheeler, M. Novacek (Eds.).
-
(1991)
Extinction and Phylogeny
, pp. 119-143
-
-
Nixon, K.C.1
Wheeler, Q.D.2
-
35
-
-
80051801316
-
The taming of an impossible child: a standardized all-in approach to the phylogeny of Hymenoptera using public database sequences
-
Peters R.S., Meyer B., Krogmann L., Borner J., Meusemann K., Schutte K., Niehuis O., Misof B. The taming of an impossible child: a standardized all-in approach to the phylogeny of Hymenoptera using public database sequences. BMC Biol. 2011, 9:55.
-
(2011)
BMC Biol.
, vol.9
, pp. 55
-
-
Peters, R.S.1
Meyer, B.2
Krogmann, L.3
Borner, J.4
Meusemann, K.5
Schutte, K.6
Niehuis, O.7
Misof, B.8
-
36
-
-
84860109324
-
MrBayes 3.2: efficient Bayesian phylogenetic inference and model choice across a large model space
-
Ronquist F., Teslenko M., van der Mark P., Ayers D.L., Darling A., Hohna S., Larget B., Liu L., Suchard M.A., Huelsenbeck J.P. MrBayes 3.2: efficient Bayesian phylogenetic inference and model choice across a large model space. Syst. Biol. 2012, 61:539-542.
-
(2012)
Syst. Biol.
, vol.61
, pp. 539-542
-
-
Ronquist, F.1
Teslenko, M.2
van der Mark, P.3
Ayers, D.L.4
Darling, A.5
Hohna, S.6
Larget, B.7
Liu, L.8
Suchard, M.A.9
Huelsenbeck, J.P.10
-
37
-
-
0034351397
-
Parametric phylogenetics?
-
Sanderson M.J., Kim J. Parametric phylogenetics?. Syst. Biol. 2000, 49:817-829.
-
(2000)
Syst. Biol.
, vol.49
, pp. 817-829
-
-
Sanderson, M.J.1
Kim, J.2
-
38
-
-
77952490857
-
Phylogenomics with incomplete taxon coverage: the limits of inference
-
Sanderson M.J., McMahon M.J., Steel M. Phylogenomics with incomplete taxon coverage: the limits of inference. BMC Evol. Biol. 2010, 10:155.
-
(2010)
BMC Evol. Biol.
, vol.10
, pp. 155
-
-
Sanderson, M.J.1
McMahon, M.J.2
Steel, M.3
-
39
-
-
2442507933
-
Independence of alignment and tree search
-
Simmons M.P. Independence of alignment and tree search. Mol. Phylogenet. Evol. 2004, 31:874-879.
-
(2004)
Mol. Phylogenet. Evol.
, vol.31
, pp. 874-879
-
-
Simmons, M.P.1
-
40
-
-
83655167077
-
Radical instability and spurious branch support by likelihood when applied to matrices with non-random distributions of missing data
-
Simmons M.P. Radical instability and spurious branch support by likelihood when applied to matrices with non-random distributions of missing data. Mol. Phylogenet. Evol. 2012, 62:472-484.
-
(2012)
Mol. Phylogenet. Evol.
, vol.62
, pp. 472-484
-
-
Simmons, M.P.1
-
41
-
-
84858080561
-
Misleading results of likelihood-based phylogenetic analyses in the presence of missing data
-
Simmons M.P. Misleading results of likelihood-based phylogenetic analyses in the presence of missing data. Cladistics 2012, 28:208-222.
-
(2012)
Cladistics
, vol.28
, pp. 208-222
-
-
Simmons, M.P.1
-
42
-
-
79960573402
-
Spurious 99% bootstrap and jackknife support for unsupported clades
-
Simmons M.P., Freudenstein J.V. Spurious 99% bootstrap and jackknife support for unsupported clades. Mol. Phylogenet. Evol. 2011, 61:177-191.
-
(2011)
Mol. Phylogenet. Evol.
, vol.61
, pp. 177-191
-
-
Simmons, M.P.1
Freudenstein, J.V.2
-
43
-
-
84880157756
-
An artifact caused by undersampling optimal trees in supermatrix analyses of locally sampled characters
-
Simmons M.P., Goloboff P.A. An artifact caused by undersampling optimal trees in supermatrix analyses of locally sampled characters. Mol. Phylogenet. Evol. 2013, 69:265-275.
-
(2013)
Mol. Phylogenet. Evol.
, vol.69
, pp. 265-275
-
-
Simmons, M.P.1
Goloboff, P.A.2
-
44
-
-
84875054472
-
Quantification and relative severity of inflated branch-support values generated by alternative methods: an empirical example
-
Simmons M.P., Norton A.P. Quantification and relative severity of inflated branch-support values generated by alternative methods: an empirical example. Mol. Phylogenet. Evol. 2013, 67:277-296.
-
(2013)
Mol. Phylogenet. Evol.
, vol.67
, pp. 277-296
-
-
Simmons, M.P.1
Norton, A.P.2
-
45
-
-
33745034045
-
Quantification of the success of phylogenetic inference in simulations
-
Simmons M.P., Webb C.T. Quantification of the success of phylogenetic inference in simulations. Cladistics 2006, 22:249-255.
-
(2006)
Cladistics
, vol.22
, pp. 249-255
-
-
Simmons, M.P.1
Webb, C.T.2
-
46
-
-
1242352069
-
How meaningful are Bayesian posterior probabilities?
-
Simmons M.P., Pickett K.M., Miya M. How meaningful are Bayesian posterior probabilities?. Mol. Biol. Evol. 2004, 21:188-199.
-
(2004)
Mol. Biol. Evol.
, vol.21
, pp. 188-199
-
-
Simmons, M.P.1
Pickett, K.M.2
Miya, M.3
-
47
-
-
78649646272
-
Alignment of, and phylogenetic inference from, random sequences: the susceptibility of alternative alignment methods to creating artifactual resolution and support
-
Simmons M.P., Müller K.F., Norton A.P. Alignment of, and phylogenetic inference from, random sequences: the susceptibility of alternative alignment methods to creating artifactual resolution and support. Mol. Phylogenet. Evol. 2010, 57:1004-1016.
-
(2010)
Mol. Phylogenet. Evol.
, vol.57
, pp. 1004-1016
-
-
Simmons, M.P.1
Müller, K.F.2
Norton, A.P.3
-
48
-
-
84860811512
-
Phylogeny of Celastraceae subfamilies Cassinoideae and Tripterygioideae inferred from morphological characters and nuclear and plastid loci
-
Simmons M.P., Bacon C.D., Cappa J.J., McKenna M.J. Phylogeny of Celastraceae subfamilies Cassinoideae and Tripterygioideae inferred from morphological characters and nuclear and plastid loci. Syst. Bot. 2012, 37:456-467.
-
(2012)
Syst. Bot.
, vol.37
, pp. 456-467
-
-
Simmons, M.P.1
Bacon, C.D.2
Cappa, J.J.3
McKenna, M.J.4
-
49
-
-
83655163776
-
Phylogeny of Celastraceae tribe Euonymeae inferred from morphological characters and nuclear and plastid genes
-
Simmons M.P., McKenna M.J., Bacon C.D., Yakobson K., Cappa J.J., Archer R.H., Ford A.J. Phylogeny of Celastraceae tribe Euonymeae inferred from morphological characters and nuclear and plastid genes. Mol. Phylogenet. Evol. 2012, 62:9-20.
-
(2012)
Mol. Phylogenet. Evol.
, vol.62
, pp. 9-20
-
-
Simmons, M.P.1
McKenna, M.J.2
Bacon, C.D.3
Yakobson, K.4
Cappa, J.J.5
Archer, R.H.6
Ford, A.J.7
-
50
-
-
84877284835
-
Phylogenetic relationships and character evolution analysis of Saxifragales using a supermatrix approach
-
Soltis D.E., Mort M.E., Latvis M., Mavrodiev E.V., O'Meara B.C., Soltis P.S., Burleigh J.G., Rubio de Casas R. Phylogenetic relationships and character evolution analysis of Saxifragales using a supermatrix approach. Am. J. Bot. 2013, 100:916-929.
-
(2013)
Am. J. Bot.
, vol.100
, pp. 916-929
-
-
Soltis, D.E.1
Mort, M.E.2
Latvis, M.3
Mavrodiev, E.V.4
O'Meara, B.C.5
Soltis, P.S.6
Burleigh, J.G.7
Rubio de Casas, R.8
-
51
-
-
84869210291
-
Macroevolutionary dynamics and historical biogeography of primate diversification inferred from a species supermatrix
-
Springer M.S., Meredith R.W., Gatesy J., Emerling C.A., Park J., Rabosky D.L., Stadler T., Steiner C., Ryder O.A., Janecka J.E., Fisher C.A., Murphy W.J. Macroevolutionary dynamics and historical biogeography of primate diversification inferred from a species supermatrix. PLoS ONE 2012, 7:e49521.
-
(2012)
PLoS ONE
, vol.7
-
-
Springer, M.S.1
Meredith, R.W.2
Gatesy, J.3
Emerling, C.A.4
Park, J.5
Rabosky, D.L.6
Stadler, T.7
Steiner, C.8
Ryder, O.A.9
Janecka, J.E.10
Fisher, C.A.11
Murphy, W.J.12
-
52
-
-
33750403801
-
RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models
-
Stamatakis A. RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models. Bioinformatics 2006, 22:2688-2690.
-
(2006)
Bioinformatics
, vol.22
, pp. 2688-2690
-
-
Stamatakis, A.1
-
53
-
-
75149150388
-
TreeGraph 2: combining and visualizing evidence from different phylogenetic analyses
-
Stöver B.C., Müller K.F. TreeGraph 2: combining and visualizing evidence from different phylogenetic analyses. BMC Bioinform. 2010, 11:7.
-
(2010)
BMC Bioinform.
, vol.11
, pp. 7
-
-
Stöver, B.C.1
Müller, K.F.2
-
54
-
-
77954202497
-
DendroPy: a python library for phylogenetic computing
-
Sukumaran J., Holder M.T. DendroPy: a python library for phylogenetic computing. Bioinformatics 2010, 26:1569-1571.
-
(2010)
Bioinformatics
, vol.26
, pp. 1569-1571
-
-
Sukumaran, J.1
Holder, M.T.2
-
55
-
-
0037058983
-
Overcredibility of molecular phylogenies obtained by Bayesian phylogenetics
-
Suzuki Y., Glazko G.V., Nei M. Overcredibility of molecular phylogenies obtained by Bayesian phylogenetics. Proc. Natl. Acad. Sci. USA 2002, 16138-16143.
-
(2002)
Proc. Natl. Acad. Sci. USA
, pp. 16138-16143
-
-
Suzuki, Y.1
Glazko, G.V.2
Nei, M.3
-
57
-
-
84872480881
-
Genome-wide RAD sequence data provide unprecedented resolution of species boundaries and relationships in the Lake Victoria cichlid adaptive radiation
-
Wagner C.E., Keller I., Wittwer S., Selz O.M., Mwaiko S., Greuter L., Sivasundar A., Seehausen O. Genome-wide RAD sequence data provide unprecedented resolution of species boundaries and relationships in the Lake Victoria cichlid adaptive radiation. Mol. Ecol. 2013, 22:787-798.
-
(2013)
Mol. Ecol.
, vol.22
, pp. 787-798
-
-
Wagner, C.E.1
Keller, I.2
Wittwer, S.3
Selz, O.M.4
Mwaiko, S.5
Greuter, L.6
Sivasundar, A.7
Seehausen, O.8
-
58
-
-
0032225748
-
Does adding characters with missing data increase or decrease phylogenetic accuracy?
-
Wiens J.J. Does adding characters with missing data increase or decrease phylogenetic accuracy?. Syst. Biol. 1998, 47:625-640.
-
(1998)
Syst. Biol.
, vol.47
, pp. 625-640
-
-
Wiens, J.J.1
-
59
-
-
0041592696
-
Incomplete taxa, incomplete characters, and phylogenetic accuracy: is there a missing data problem?
-
Wiens J.J. Incomplete taxa, incomplete characters, and phylogenetic accuracy: is there a missing data problem?. J. Vertebr. Paleontol. 2003, 23:297-310.
-
(2003)
J. Vertebr. Paleontol.
, vol.23
, pp. 297-310
-
-
Wiens, J.J.1
-
60
-
-
30344464074
-
Can incomplete taxa rescue phylogenetic analyses from long-branch attraction?
-
Wiens J.J. Can incomplete taxa rescue phylogenetic analyses from long-branch attraction?. Syst. Biol. 2005, 54:731-742.
-
(2005)
Syst. Biol.
, vol.54
, pp. 731-742
-
-
Wiens, J.J.1
-
61
-
-
34547803197
-
PAML 4: phylogenetic analysis by maximum likelihood
-
Yang Z. PAML 4: phylogenetic analysis by maximum likelihood. Mol. Biol. Evol. 2007, 24:1586-1591.
-
(2007)
Mol. Biol. Evol.
, vol.24
, pp. 1586-1591
-
-
Yang, Z.1
-
62
-
-
0030749810
-
Bayesian phylogenetic inference using DNA sequences: a Markov Chain Monte Carlo method
-
Yang Z., Rannala B. Bayesian phylogenetic inference using DNA sequences: a Markov Chain Monte Carlo method. Mol. Biol. Evol. 1997, 14:717-724.
-
(1997)
Mol. Biol. Evol.
, vol.14
, pp. 717-724
-
-
Yang, Z.1
Rannala, B.2
-
63
-
-
2942525004
-
PEST: Precision estimated by sampling traits
-
Program distributed by the authors
-
Zujko-Miller, C., Miller, J.A., 2003. PEST: Precision estimated by sampling traits. <>. Program distributed by the authors. http://www.gwu.edu/~clade/spiders/pestDocs.htm.
-
(2003)
-
-
Zujko-Miller, C.1
Miller, J.A.2
-
64
-
-
0001336097
-
RbcL sequence data and phylogenetic reconstruction in seed plants: forward
-
Zurawski G., Clegg M.T. RbcL sequence data and phylogenetic reconstruction in seed plants: forward. Ann. Mol. Bot. Gard. 1993, 80:523-525.
-
(1993)
Ann. Mol. Bot. Gard.
, vol.80
, pp. 523-525
-
-
Zurawski, G.1
Clegg, M.T.2
-
65
-
-
33750387249
-
Genetic Algorithm Approaches for the Phylogenetic Analysis of Large Biological Sequence Datasets under the Maximum Likelihood Criterion
-
Ph.D. Dissertation, The University of Texas at Austin
-
Zwickl, D.J., 2006. Genetic Algorithm Approaches for the Phylogenetic Analysis of Large Biological Sequence Datasets under the Maximum Likelihood Criterion. Ph.D. Dissertation, The University of Texas at Austin.
-
(2006)
-
-
Zwickl, D.J.1
-
66
-
-
84894617024
-
-
GARLI 0.96 settings cheat sheet (Smithsonian, June 09). Distributed by the author
-
Zwickl, D.J., 2009. GARLI 0.96 settings cheat sheet (Smithsonian, June 09). Distributed by the author.
-
(2009)
-
-
Zwickl, D.J.1
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