The DOI matches its Crossref record; 25 of the 25 references it cites were found in a registry or an index.
Analyzing Large Data Sets in Reasonable Times: Solutions for Composite Optima
Open accessAbstract
New methods for parsimony analysis of large data sets are presented. The new methods are sectorial searches, tree‐drifting, and tree‐fusing. For Chase et al. 's 500‐taxon data set these methods (on a 266‐MHz Pentium II) find a shortest tree in less than 10 min (i.e., over 15,000 times faster than PAUP and 1000 times faster than PAUP*). Making a complete parsimony analysis requires hitting minimum length several times independently, but not necessarily all “islands” for Chase et al. 's data set, this can be done in 4 to 6 h. The new methods also perform well in other cases analyzed (which range from 170 to 854 taxa).
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“A common problem in palaeontological studies is the extremely large numbers of equally parsimonious trees (due to missing entries), but the consensus stabilization procedure can produce an accurate consensus without finding all equally possible most parsimonious trees (thus greatly saving in computational effort [100]).”
From Potential for Powered Flight Neared by Most Close Avialan Relatives, but Few Crossed Its Thresholds (2020) · cites this paper as [100]
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Citations
Cites
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The Parsimony Ratchet, a New Method for Rapid Parsimony Analysis
Nixon, K. C. (1999) · Cladistics · doi:10.1111/j.1096-0031.1999.tb00277.x · Cited by 1,748
PARSIMONY JACKKNIFING OUTPERFORMS NEIGHBOR‐JOINING
Farris, J. S., Albert, V. A., Källersjö, M., Lipscomb, D., & Kluge, A. G. (1996) · Cladistics · doi:10.1111/j.1096-0031.1996.tb00196.x · Cited by 1,512
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Maddison, D. R. (1991) · Systematic Biology · doi:10.1093/sysbio/40.3.315 · Cited by 812
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Maddison, D. R. (1991) · Systematic Zoology · doi:10.2307/2992325 · Cited by 521
Lefèvre, E., Bardot, C., Noël, C. J., Carrias, J., Viscogliosi, É., Amblard, C., & Sime‐Ngando, T. (2006) · Environmental Microbiology · doi:10.1111/j.1462-2920.2006.01111.x · Cited by 411
PROBLEMS WITH ZERO‐LENGTH BRANCHES
Coddington, J. A., & Scharff, N. (1994) · Cladistics · doi:10.1111/j.1096-0031.1994.tb00187.x · Cited by 241
Giribet, G., & Wheeler, W. C. (1999) · Molecular Phylogenetics and Evolution · doi:10.1006/mpev.1999.0679 · Cited by 226
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PARSIMONY JACKKNIFING OUTPERFORMS NEIGHBOR-JOINING
Farris, J. S. (1996) · Cladistics · doi:10.1006/clad.1996.0008 · Cited by 186
Analyzing Large Data Sets: rbcL 500 Revisited
Rice, K. A., Donoghue, M. J., & Olmstead, R. G. (1997) · Systematic Biology · doi:10.1093/sysbio/46.3.554 · Cited by 118
AN EMPIRICAL COMPARISON OF MICROCOMPUTER PARSIMONY PROGRAMS
Platnick, N. I. (1987) · Cladistics · doi:10.1111/j.1096-0031.1987.tb00502.x · Cited by 117
METHODS FOR FASTER PARSIMONY ANALYSIS
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Self-citationMETHODS FOR FASTER PARSIMONY ANALYSIS
Goloboff, P. A. (1996) · Cladistics · doi:10.1111/j.1096-0031.1996.tb00009.x · Cited by 83
Self-citationSearching for Most Parsimonious Trees with Simulated Evolutionary Optimization
Moilanen, A. (1999) · Cladistics · doi:10.1006/clad.1998.0081 · Cited by 64
Fast Fitch‐Parsimony Algorithms for Large Data Sets
Ronquist, F. (1998) · Cladistics · doi:10.1111/j.1096-0031.1998.tb00346.x · Cited by 61
Support, Ribosomal Sequences and the Phylogeny Of The Eukaryotes
Lipscomb, D., Farris, J. S., Källersjö, M., & Tehler, A. (1998) · Cladistics · doi:10.1111/j.1096-0031.1998.tb00341.x · Cited by 50
Searching for Most Parsimonious Trees with Simulated Evolutionary Optimization
Moilanen, A. (1999) · Cladistics · doi:10.1111/j.1096-0031.1999.tb00393.x · Cited by 49
Problems With Zero-length Branches
Coddington, J. A. (1994) · Cladistics · doi:10.1006/clad.1994.1027 · Cited by 44
Cladistic analysis, phylogeny and biogeography of the Hawaiian Platynini (Coleoptera: Carabidae)
Liebherr, J. K., & Zimmerman, E. C. (1998) · Systematic Entomology · doi:10.1046/j.1365-3113.1998.00044.x · Cited by 38
Fast Fitch-Parsimony Algorithms for Large Data Sets
Ronquist, F. (1998) · Cladistics · doi:10.1006/clad.1998.0082 · Cited by 34
Efficient Incremental Character Optimization
Gladstein, D. S. (1997) · Cladistics · doi:10.1006/clad.1996.0040 · Cited by 29
Efficient Incremental Character Optimization
Gladstein, D. S. (1997) · Cladistics · doi:10.1111/j.1096-0031.1997.tb00239.x · Cited by 22
Research works printed but not linked: 2
- Swofford D., 1993, Program and documentation. Laboratory of Molecular Systematics
- Swofford D., 1998, PAUP*: Phylogenetic Analysis Using Parsimony (* and Other Methods), version 4
Cited by
Sorted by citations
TNT, a free program for phylogenetic analysis
Goloboff, P. A., Farris, J. S., & Nixon, K. C. (2008) · Cladistics · doi:10.1111/j.1096-0031.2008.00217.x · Cited by 5,352
Self-citationGRANT, T., FROST, D. R., CALDWELL, J. P., GAGLIARDO, R., HADDAD, C. F. B., KOK, P. J. R., MEANS, D. B., NOONAN, B. P., SCHARGEL, W. E., & WHEELER, W. C. (2006) · Bulletin of the American Museum of Natural History · doi:10.1206/0003-0090(2006)299[1:psodfa]2.0.co;2 · Cited by 578
LIVEZEY, B. C., & ZUSI, R. L. (2007) · Zoological Journal of the Linnean Society · doi:10.1111/j.1096-3642.2006.00293.x · Cited by 574
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Goloboff, P. A. (2014) · Cladistics · doi:10.1111/cla.12047 · Cited by 248
Self-citation
Metadata
- Authors
- Goloboff, P. A.
- Affiliations
- Consejo Nacional de Investigaciones Científicas y Técnicas (AR)
- Corresponding author
- Goloboff, Pablo A.
- ORCID
- Goloboff, Pablo A.
- Venue
- Cladistics
- Publisher
- Wiley
- Published
- 1999-12
- Volume
- 15
- Issue
- 4
- Pages
- 415-428
- ISSN
- 0748-3007 (ISSN-L)
- 1096-0031
- OpenAlex
- W2106179083
- Cited by
- 1,039
- References
- 25
- Citations by year
- 2026: 13 · 2025: 23 · 2024: 35 · 2023: 30 · 2022: 32 · 2021: 48 · 2020: 53 · 2019: 33 · 2018: 38 · 2017: 41 · 2016: 55 · 2015: 32 · 2014: 76 · 2013: 66 · 2012: 55
- FWCI
- 2.99
- Type
- journal article
- Language
- en
- Open access
- bronze
- doi.org
- Locations
- Cladistics (publishedVersion)
- PubMed (publishedVersion)
- Funders
- University of Washington
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Phylogenetic Studies
- Physical Sciences › Earth and Planetary Sciences › Paleontology › Evolution and Paleontology Studies
- Life Sciences › Agricultural and Biological Sciences › Ecology, Evolution, Behavior and Systematics › Plant Diversity and Evolution
- Keywords
- parsimony analysis, large data sets, phylogenetic tree search, computational efficiency
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