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Gilbert, Kimberly J.; Whitlock, Michael C.

<b>Abstract</b><br/>QST, a measure of quantitative genetic differentiation among populations, is an index that can suggest local adaptation if QST for a trait is sufficiently larger than the mean FST of neutral genetic markers. A previous method by Whitlock and Guillaume derived a simulation resampling approach to statistically test for a difference between QST and FST, but that method is limited to balanced data sets with offspring related as half-sibs through shared fathers. We extend this approach to (1) allow for a model more suitable for some plant populations or breeding designs in which offspring are related through mothers (assuming independent fathers for each offspring; half-sibs by dam), and (2) by explicitly allowing for unbalanced data sets. The resulting approach is made available through the R package QstFstComp.; <b>Usage notes</b><br /><div class="o-metadata__file-usage-entry"><h4 class="o-heading__level3-file-title">SourceCode_DamModel</h4><div class="o-metadata__file-description">Source code used when doing type I error testing of balanced or unbalanced half-sib dam model</div><div class="o-metadata__file-name">DamModel_WorkingCopy.R</br></div></div><div class="o-metadata__file-usage-entry"><h4 class="o-heading__level3-file-title">SireModel_WorkingCopy</h4><div class="o-metadata__file-description">Source code used when doing type I error testing of unbalanced half-sib sire model</div><div class="o-metadata__file-name"></div></div><div class="o-metadata__file-usage-entry"><h4 class="o-heading__level3-file-title">TypeI_ErrorTest_DamBalanced</h4><div class="o-metadata__file-description">R code to run the error testing of the balanced half-sib dam model over 1000 replicate datasets.</div><div class="o-metadata__file-name"></div></div><div class="o-metadata__file-usage-entry"><h4 class="o-heading__level3-file-title">TypeI_ErrorTest_DamUnbalanced</h4><div class="o-metadata__file-description">R code to run the error testing of the unbalanced half-sib dam model over 1000 replicate datasets.</div><div class="o-metadata__file-name"></div></div><div class="o-metadata__file-usage-entry"><h4 class="o-heading__level3-file-title">TypeI_ErrorTest_SireUnbalanced</h4><div class="o-metadata__file-description">R code to run the error testing of the unbalanced half-sib sire model over 1000 replicate datasets.</div><div class="o-metadata__file-name"></div></div><div class="o-metadata__file-usage-entry"><h4 class="o-heading__level3-file-title">NemoReplicates</h4><div class="o-metadata__file-description">Zipped file containing the 1000 simulated replicate datasets from Nemo used for type I error testing.</div><div class="o-metadata__file-name"></div></div>

Dataset

2020-06-24

CC0 1.0

https://doi.org/10.5683/SP2/9PBQES

http://creativecommons.org/publicdomain/zero/1.0