softwares for phylogenetic trees - Browse Files at SourceForge.net

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Name	Modified	InfoDownloads / Week
TreeFam-Perl-API	2009-02-13	0
treebest	2007-10-19	1
njtree-devel	2007-04-22	0
atvEditor	2007-04-20	0
OldFiles	2007-04-17	2
Totals: 5 Items		3

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PhyloPattern is a Java/Prolog API, helpful to simulate human reading of phylogenetic trees. Bioinformatician can: annotate trees, apply complex patterns to a tree to search specific architectures or extract information, compare trees with dynamically gen
kSNP
kSNP4 identifies the pan-genome SNPs in a set of genome sequences, and estimates phylogenetic trees based upon those SNPs. SNP discovery is based on k-mer analysis, and requires no multiple sequence alignment or the selection of a reference genome, so kSNP4 can take 100's of microbial genomes as...
PhyRe: PHYlogenetic REpresentativeness
Phylogenetic Representativeness is a method for estimating adequacy of taxon sampling for phylogenetic studies. Through a series of statistics generated by PhyRe, it is possible to evaluate taxon coverage within a given group.
Newick Utils
Shell tools for Newick-fromatted trees
ZORRO
ZORRO is a probabilistic masking program that assigns confidence scores to each column in a multiple seqeunce alignment. These scores can then be used to account for alignment accuracy in phylogenetic inference pipelines.

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