QTLseqr: An R Package for Bulk Segregant Analysis with Next‐Generation Sequencing
2018; Crop Science Society of America; Volume: 11; Issue: 2 Linguagem: Inglês
10.3835/plantgenome2018.01.0006
ISSN1940-3372
AutoresBen N. Mansfeld, Rebecca Grumet,
Tópico(s)Gene expression and cancer classification
ResumoNext‐Generation Sequencing Bulk Segregant Analysis (NGS‐BSA) is efficient in detecting quantitative trait loci (QTL). Despite the popularity of NGS‐BSA and the R statistical platform, no R packages are currently available for NGS‐BSA. We present QTLseqr, an R package for NGS‐BSA that identifies QTL using two statistical approaches: QTL‐seq and G’. These approaches use a simulation method and a tricube smoothed G statistic, respectively, to identify and assess statistical significance of QTL. QTLseqr can import and filter SNP data, calculate SNP distributions, relative allele frequencies, G’ values, and log 10 ( p ‐values), enabling identification and plotting of QTL. The source code is available at https://github.com/bmansfeld/QTLseqr .
Referência(s)