Bioinformatic processing of RAD‐seq data dramatically impacts downstream population genetic inference
نویسندگان
چکیده
منابع مشابه
RADpainter and fineRADstructure: population inference from RADseq data.
Powerful approaches to inferring recent or current population structure based on nearest neighbour haplotype 'coancestry' have so far been inaccessible to users without high quality genome-wide haplotype data. With a boom in non-model organism genomics, there is a pressing need to bring these methods to communities without access to such data. Here we present RADpainter, a new program designed ...
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This article is concerned with statistical modeling of shotgun resequencing data and the use of such data for population genetic inference. We model data produced by sequencing-by-synthesis technologies such as the Solexa, 454, and polymerase colony (polony) systems, whose use is becoming increasingly widespread. We show how such data can be used to estimate evolutionary parameters (mutation an...
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Although pooled-population sequencing has become a widely used approach for estimating allele frequencies, most work has proceeded in the absence of a proper statistical framework. We introduce a self-sufficient, closed-form, maximum-likelihood estimator for allele frequencies that accounts for errors associated with sequencing, and a likelihood-ratio test statistic that provides a simple means...
متن کاملBrief Communication Title: RADpainter and fineRADstructure: population inference from RADseq data
Powerful approaches to inferring recent or current population structure based on nearest neighbor haplotype ‘coancestry’ have so far been inaccessible to users without high quality genome-wide haplotypes. With a boom in non-model organism genomics, there is a pressing need to bring these approaches to communities without access to such data. Here we present RADpainter, a new program designed to...
متن کاملRADSeq: next-generation population genetics.
Next-generation sequencing technologies are making a substantial impact on many areas of biology, including the analysis of genetic diversity in populations. However, genome-scale population genetic studies have been accessible only to well-funded model systems. Restriction-site associated DNA sequencing, a method that samples at reduced complexity across target genomes, promises to deliver hig...
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ژورنال
عنوان ژورنال: Methods in Ecology and Evolution
سال: 2016
ISSN: 2041-210X,2041-210X
DOI: 10.1111/2041-210x.12700