This package will be a collection of tools that are routinely used by Texas A&M University Rose Breeding Program for analysis of genetic data from the WagRhSNP68k SNP array
Tools in this package were used in this paper:
Rose Rosette Disease Resistance Loci Detected in Two Interconnected Tetraploid Garden Rose Populations
IMPORTANT: Must have internet connection for some of the functions as some functions need annotation files that are hosted online.
To download this package in R or Rstudio, use the following lines of code:
install.packages('devtools')
devtools::install_github("jeekinlau/RoseArrayTools")
For R-package to run correctly, you must also install the R-packages: "data.table", "splitstackshape" The two dependencies below should install automatically using the two lines of code above but in case it does not install them manually.
install.packages('data.table')
install.packages('splitstackshape')
Use the link to the Vignette below for the functions included in this package.
*Link to Vignette