SCANMS: adjusting for multiple comparisons in sliding window neutrality tests | Zendy

David H. Ardell | Zendy

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SCANMS: adjusting for multiple comparisons in sliding window neutrality tests

Author(s) -

David H. Ardell

Publication year - 2004

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 3.599

H-Index - 390

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/bth187

Subject(s) - window (computing) , sliding window protocol , perl , maxima , parametric statistics , maxima and minima , computer science , distribution (mathematics) , algorithm , statistics , mathematics , mathematical analysis , programming language , operating system , art , performance art , art history

A Perl utility called SCANMS was written that operates on parametric bootstrap data generated by Hudson's simulator MS. SCANMS simulates sliding window analysis of Tajima's D or Fu and Li's D(*) or F(*) over the replicates and generates the empirical joint distribution of window minima and maxima. This distribution may then be used to calculate achieved significance values or significance cutoffs that account for multiple comparisons in sliding window analysis of real data.

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