Jupyter notebook:
RStudio:
This is a short tutorial on QTL analysis in the BXD mouse recombinant inbred lines using R/qtl2, to be presented at the Complex Trait Community meeting in San Diego on 9 June 2019.
The goal is to demonstrate
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grabbing BXD phenotype data via the GeneNetwork2 API, using the R/GNapi package
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QTL mapping with R/qtl2
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browsing QTL results using the Genetics Genome Browser and the R/qtl2browse package
It's presented both as a Jupyter notebook and as R Markdown. The compiled R Markdown file is at https://kbroman.org/Teaching_CTC2019/CTC2019_tutorial.html.
Live versions of the Jupyter notebook, or of RStudio with appropriate packages installed, are available via the above binder badges.
To the extent possible under law,
Karl Broman has waived all copyright and
related or neighboring rights to
“Mapping QTL in BXD mice using R/qtl2”.
This work is published from the United States.
