Requirements: Participants must bring a laptop with a
Mac, Linux, or Windows operating system (not a tablet, Chromebook, etc.) that they have administrative privileges on. They should have a few specific software packages installed (listed below).
Code of Conduct: Everyone who participates in Carpentries activities is required to conform to the Code of Conduct. This document also outlines how to report an incident if needed.
Accessibility: We are committed to making this workshop
accessible to everybody.
The workshop organizers have checked that:
The room is wheelchair / scooter accessible.
Accessible restrooms are available.
Materials will be provided in advance of the workshop and
large-print handouts are available if needed by notifying the
organizers in advance. If we can help making learning easier for
you (e.g. sign-language interpreters, lactation facilities) please
get in touch (using contact details below) and we will
attempt to provide them.
Install R by downloading and running
this .exe file
Also, please install the
Note that if you have separate user and admin accounts, you should run the
installers as administrator (right-click on .exe file and select "Run as
administrator" instead of double-clicking). Otherwise problems may occur later,
for example when installing R packages.
You can download the binary files for your distribution
from CRAN. Or
you can use your package manager (e.g. for Debian/Ubuntu
run sudo apt-get install r-base and for Fedora run
sudo dnf install R). Also, please install the
The qtl2 package contains code for haplotype reconstruction, QTL mapping and plotting.
Option 1: R/qtl2 is not yet available on CRAN, but it can be installed from a mini-CRAN at rqtl.org. Make sure you have the latest version of R (3.4.4).
Option 2: Alternatively, you can install R/qtl2 from its source on GitHub.
(But note that compiling the C++ code can be rather slow.)
You then need to install the
devtools package, plus a set of
package dependencies: yaml,
(Additional, secondary dependencies will also be installed.) Start RStudio, then copy and paste the following code into the R console in RStudio.
Please download the following large files before the workshop, and place them in your data folder. You can download the files from the URLs below and move the files the same way that you would for downloading and moving any other kind of data.