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. 1996 Jun;12(2):99-124.
doi: 10.1111/j.1096-0031.1996.tb00196.x.

PARSIMONY JACKKNIFING OUTPERFORMS NEIGHBOR-JOINING

James S Farris  1 , Victor A Albert  2 , Mari Källersjö  1 , Diana Lipscomb  3 , Arnold G Kluge  4
Affiliations
Free article

PARSIMONY JACKKNIFING OUTPERFORMS NEIGHBOR-JOINING

James S Farris et al. Cladistics. 1996 Jun.
Free article

Abstract

Abstract- Because they are designed to produced just one tree, neighbor-joining programs can obscure ambiguities in data. Ambiguities can be uncovered by resampling, but existing neighbor-joining programs may give misleading bootstrap frequencies because they do not suppress zero-length branches and/or are sensitive to the order of terminals in the data. A new procedure, parsimony jackknifing, overcomes these problems while running hundreds of times faster than existing programs for neighbor-joining bootstrapping. For analysis of large matrices, parsimony jackknifing is hundreds of thousands of times faster than extensive branch-swapping, yet is better able to screen out poorly-supported groups.

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References

REFERENCES

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