The goal of MutantSets is to permit the exploration of the results of whole genome sequencing and mutation calling in C. elegans, with the goal of identify candidate mutations responsible for phenotypes in genetic screens though mapping by sequencing.
Use a hosted instance
You can use MutantSets at shinyapps.io
Note that this instance is not very powerful and may crash with larger .vcf if they exceed the available memory.
Local R Installation
You can install the released version of MutantSets from github with:
remotes::install_github("CECADBioinformaticsCoreFacility/MutantSets")NB on more recent R versions there may be issues install the vcfR package if this is an issue when you attempt to install this package please try installing vcfR from source with:
remotes::install_github("knausb/vcfR")Alternatively if you use nix this git repo contains a default.nix file so you clone it, enter the repo, and the following command to start the app.
nix-shell --command "Rscript -e 'MutantSets::launchApp()'"Example
To start the app run:
MutantSets::launchApp()For instructions on how to prepare data for use in this app see the vignette:
vignette("Generating-input", package = "MutantSets")Run on Renku
https://renkulab.io/projects/racton/mutantsets
You can Run MutantSets without installing it on your local machine by going to it’s page on Renkulab.io and hitting start, it will take a minute to get spun up but should work just fine after that. Click open to view in full screen.
