Back to Search
Start Over
R/qtl2: Software for Mapping Quantitative Trait Loci with High-Dimensional Data and Multiparent Populations
- Source :
- Genetics
- Publication Year :
- 2018
-
Abstract
- R/qtl2 is an interactive software environment for mapping quantitative trait loci (QTL) in experimental populations. The R/qtl2 software expands the scope of the widely-used R/qtl software package to include multiparental populations, better handles modern high-dimensional data....<br />R/qtl2 is an interactive software environment for mapping quantitative trait loci (QTL) in experimental populations. The R/qtl2 software expands the scope of the widely used R/qtl software package to include multiparent populations derived from more than two founder strains, such as the Collaborative Cross and Diversity Outbred mice, heterogeneous stocks, and MAGIC plant populations. R/qtl2 is designed to handle modern high-density genotyping data and high-dimensional molecular phenotypes, including gene expression and proteomics. R/qtl2 includes the ability to perform genome scans using a linear mixed model to account for population structure, and also includes features to impute SNPs based on founder strain genomes and to carry out association mapping. The R/qtl2 software provides all of the basic features needed for QTL mapping, including graphical displays and summary reports, and it can be extended through the creation of add-on packages. R/qtl2, which is free and open source software written in the R and C++ programming languages, comes with a test framework.
- Subjects :
- 0106 biological sciences
MPP
Genotyping Techniques
QTL
Quantitative Trait Loci
Single-nucleotide polymorphism
Computational biology
Biology
Quantitative trait locus
Investigations
01 natural sciences
Genome
Collaborative Cross
03 medical and health sciences
Mice
Software
multiparent populations
Multiparental Populations
Genetics
Animals
Diversity Outbred mice
Association mapping
Genotyping
030304 developmental biology
0303 health sciences
business.industry
software
Strain (biology)
heterogeneous stock
Chromosome Mapping
MAGIC
Multiparent Advanced Generation Inter-Cross (MAGIC)
business
Scope (computer science)
010606 plant biology & botany
Genome-Wide Association Study
Subjects
Details
- ISSN :
- 19432631
- Volume :
- 211
- Issue :
- 2
- Database :
- OpenAIRE
- Journal :
- Genetics
- Accession number :
- edsair.doi.dedup.....d2e510591d4b30453533283cd5c165a9