LOSITAN: A workbench to detect molecular adaptation based on a F(st)-outlier method

• Type: Article in International Scientific Journal
• Date: 2008

Authors

antao, t (Author) Other; lopes, a (Author) Other; lopes, rj (Author) Other; beja-pereira, a (Author) FCUP; luikart, g (Author) Other

Journal

Title: BMC Bioinformatics

Vol. 9

ISSN: 1471-2105

Publisher: Springer Nature

Indexing

ISI Web of Knowledge - 930 Citations

Scopus - 928 Citations

Scientific classification

FOS: Natural sciences > Biological sciences

Other information

Authenticus ID: P-003-XP4

DOI: 10.1186/1471-2105-9-323

Abstract (EN): Background: Testing for selection is becoming one of the most important steps in the analysis of multilocus population genetics data sets. Existing applications are difficult to use, leaving many non-trivial, error-prone tasks to the user. Results: Here we present LOSITAN, a selection detection workbench based on a well evaluated F(st)-outlier detection method. LOSITAN greatly facilitates correct approximation of model parameters ( e. g., genome-wide average, neutral F(st)), provides data import and export functions, iterative contour smoothing and generation of graphics in a easy to use graphical user interface. LOSITAN is able to use modern multi-core processor architectures by locally parallelizing fdist, reducing computation time by half in current dual core machines and with almost linear performance gains in machines with more cores. Conclusion: LOSITAN makes selection detection feasible to a much wider range of users, even for large population genomic datasets, by both providing an easy to use interface and essential functionality to complete the whole selection detection process.

Language: English

Type (Professor's evaluation): Scientific