Abstract:
BACKGROUND:An increasing number of bioinformatics methods are considering the phylogenetic relationships between biological sequences. Implementing new methodologies using the maximum likelihood phylogenetic framework can be a time consuming task. RESULTS:The bioinformatics library libcov is a collection of C++ classes that provides a high and low-level interface to maximum likelihood phylogenetics, sequence analysis and a data structure for structural biological methods. libcov can be used to compute likelihoods, search tree topologies, estimate site rates, cluster sequences, manipulate tree structures and compare phylogenies for a broad selection of applications. CONCLUSION:Using this library, it is possible to rapidly prototype applications that use the sophistication of phylogenetic likelihoods without getting involved in a major software engineering project. libcov is thus a potentially valuable building block to develop in-house methodologies in the field of protein phylogenetics.
journal_name
BMC Bioinformaticsjournal_title
BMC bioinformaticsauthors
Butt D,Roger AJ,Blouin Cdoi
10.1186/1471-2105-6-138keywords:
subject
Has Abstractpub_date
2005-06-06 00:00:00pages
138issn
1471-2105pii
1471-2105-6-138journal_volume
6pub_type
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