VCF to Lep-MAP
The following steps take a .vcf file with a full sib pedigree and turn it into a .linkage file for Lep-MAP.
Transpose data frame
It is very easy to flip transpose a data frame in R.
Density plot
A density plot can be used to compare the distribution of different variables.
Installing packages
Sometimes a package is needed that is not part of the R installation. It is easy to install it, and all its dependencies.
R GUIs
To find out the version of all R packages used, which is useful to refer to in publications
Plotting with panels and labelling
It is easy to produce figures with multiple panels in R.
Antilogit
The antilogit value of a variable can. E useful in plotting.
Bar plots
Barplots can be useful for comparing different treatments.