rTASSEL is an R-based front-end for accessing key TASSEL 5 methods and tools.
This allows users to run powerful TASSEL 5 analyses within a unified R workflow,
without switching between environments. rTASSEL also offers performance and
feature advantages over other R packages. See these benchmarks
for details.
To cite rTASSEL, please use the following citation:
Monier et al., (2022). rTASSEL: An R interface to TASSEL for analyzing genomic diversity. Journal of Open Source Software, 7(76), 4530, https://doi.org/10.21105/joss.04530
# install.packages("pak")
pak::pak("maize-genetics/[email protected]")
# install.packages("pak")
pak::pak("maize-genetics/rTASSEL")
Note
Since rTASSEL uses rJava, you will need a working version of Java
(
Mac/Linux users: you may need to run R CMD javareconf if
you run into issues with installing rJava via pak. More installation tips
can be found here.
If you want to test out what this package does but do not want to install it
locally, we have set up an interactive Jupyter notebook detailing the
walkthrough of rTASSEL on Binder. The Binder link can be accessed through
the Binder icon on this page or by clicking
here.
For an overview of available functions, use the following command:
help(package = "rTASSEL")
If you need a walkthrough for potential pipelines, long-form documentation can be found on our website including a getting started article.
If you would like to study a function in full, refer to the R documentation
by using ?<function> in the console, where <function> is an
rTASSEL-based function.