TY - JOUR

T1 - SmileFinder: A resampling-based approach to evaluate signatures of selection from genome-wide sets of matching allele frequency data in two or more diploid populations

AU - Guiblet, W.M.

AU - Zhao, K.

AU - O'Brien, S.J.

AU - Massey, S.E.

AU - Roca, A.L.

AU - Oleksyk, T.K.

PY - 2015

Y1 - 2015

N2 - © 2015 Guiblet et al.Background: Adaptive alleles may rise in frequency as a consequence of positive selection, creating a pattern of decreased variation in the neighboring loci, known as a selective sweep. When the region containing this pattern is compared to another population with no history of selection, a rise in variance of allele frequencies between populations is observed. One challenge presented by large genome-wide datasets is the ability to differentiate between patterns that are remnants of natural selection from those expected to arise at random and/or as a consequence of selectively neutral demographic forces acting in the population. Findings: SmileFinder is a simple program that looks for diversity and divergence patterns consistent with selection sweeps by evaluating allele frequencies in windows, including neighboring loci from two or more populations of a diploid species against the genome-wide neutral expectation. The program calculates the mean of heterozygosity and FST in a set of slidi

AB - © 2015 Guiblet et al.Background: Adaptive alleles may rise in frequency as a consequence of positive selection, creating a pattern of decreased variation in the neighboring loci, known as a selective sweep. When the region containing this pattern is compared to another population with no history of selection, a rise in variance of allele frequencies between populations is observed. One challenge presented by large genome-wide datasets is the ability to differentiate between patterns that are remnants of natural selection from those expected to arise at random and/or as a consequence of selectively neutral demographic forces acting in the population. Findings: SmileFinder is a simple program that looks for diversity and divergence patterns consistent with selection sweeps by evaluating allele frequencies in windows, including neighboring loci from two or more populations of a diploid species against the genome-wide neutral expectation. The program calculates the mean of heterozygosity and FST in a set of slidi

U2 - 10.1186/2047-217X-4-1

DO - 10.1186/2047-217X-4-1

M3 - Article

SP - None

JO - GigaScience

JF - GigaScience

SN - 2047-217X

IS - 1

ER -