LDDist: a Perl module for calculating LogDet pair-wise distances for protein and nucleotide sequences

@article{Thollesson2004LDDistAP,
  title={LDDist: a Perl module for calculating LogDet pair-wise distances for protein and nucleotide sequences},
  author={Mikael Thollesson},
  journal={Bioinformatics},
  year={2004},
  volume={20 3},
  pages={416-8}
}
LDDist is a Perl module implemented in C++ that allows the user to calculate LogDet pair-wise genetic distances for amino acid as well as nucleotide sequence data. It can handle site-to-site rate variation by treating a proportion of the sites as invariant and/or by assigning sites to different, presumably homogenous, rate categories. The rate-class assignments and invariant proportion can be set explicitly, or estimated by the program; the latter using either of two different capture-recapture… CONTINUE READING

Citations

Publications citing this paper.
Showing 1-10 of 19 extracted citations

e-Junk explosion.

BMC Biology • 2002
View 4 Excerpts
Highly Influenced

Bioinformatics for DNA Sequence Analysis

Methods in Molecular Biology • 2009

References

Publications referenced by this paper.
Showing 1-10 of 22 references

An index of substitution saturation and its application.

Molecular phylogenetics and evolution • 2003
View 12 Excerpts
Highly Influenced

Trees for bees.

Trends in ecology & evolution • 2001
View 1 Excerpt

Phylogenetic analysis of dorid nudibranchs ( Gastropoda , Doridoidea ) using the mitochondrial 16 S rRNA gene

M. Thollesson
J . moll . Stud . • 1999
View 1 Excerpt

Spectral analysis, systematic bias, and the evolution of chloroplasts

P. J. Lockhart, C. J. Howe, A. C. Barbrook, A.W.D. Larkum, D. Penny
Mol. Biol. Evol., • 1999
View 1 Excerpt

The mathematical theory of communication. 1963.

M.D. computing : computers in medical practice • 1997
View 2 Excerpts

Similar Papers

Loading similar papers…