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Neighborhood Correlation
Sequence Similarity Network Reveals Common Ancestry of Multidomain
Proteins
N. Song, J. Joseph, G. B. Davis, D. Durand, PLoS Comp. Biol., May 16, 2008.
Neighborhood
Correlation website
A
Python
3.x implementation of Neighborhood Correlation by Jesper Holm in
Lars Avestad's lab.
Notung
Inferring duplications, losses, transfers and incomplete lineage
sorting with nonbinary species trees.
M. Stolzer, H. Lai, M. Xu, D. Sathay, B. Vernot, and D. Durand, 2012.
Bioinformatics 28(18):i409-i415;
doi:10.1093/bioinformatics/bts386.
Supplementary information
Notung 3.0
Gene Clusters
The Statistical Analysis of Spatially Clustered Genes under
the Maximum Gap Criterion
R. Hoberman,
D. Sankoff and D. Durand, 2005. Journal of Computational
Biology, 12(8): 1081-1100.
Link
to Mathematica code.
Individual gene cluster statistics in noisy maps
N. Raghupathy and D. Durand, 2005. RECOMB Workshop on
Comparative Genomics,
McLysaght and Huson, Eds., Lecture Notes in
Bioinformatics vol. 3678, Springer-Verlag, pp. 106-120.
Link
to Mathematica code.
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