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title: Setup | ||
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Ensure that you have the most recent versions of R and RStudio installed on your computer. | ||
For detailed instructions on how to do this, you can refer to the section "If you already have R and RStudio installed" | ||
in the [Introduction to R](https://carpentries-incubator.github.io/bioc-intro/#r-and-rstudio) | ||
episode of the [Introduction to data analysis with R and Bioconductor](https://carpentries-incubator.github.io/bioc-intro) lesson. | ||
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Additionally, you will also need to install the following packages that will be used throughout the lesson. | ||
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```r | ||
install.packages(c("BiocManager", "remotes")) | ||
BiocManager::install(c("tidyverse", "SummarizedExperiment", | ||
"ExploreModelMatrix", "AnnotationDbi", "org.Hs.eg.db", | ||
"org.Mm.eg.db", "csoneson/ConfoundingExplorer", | ||
"DESeq2", "vsn", "ComplexHeatmap", "hgu95av2.db", | ||
"RColorBrewer", "hexbin", "cowplot", "iSEE", | ||
"clusterProfiler", "enrichplot", "kableExtra", | ||
"msigdbr", "gplots", "ggplot2", "simplifyEnrichment", | ||
"apeglm", "microbenchmark", "Biostrings", | ||
"SingleCellExperiment")) | ||
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``` | ||
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_If you are attending a workshop, please complete all of the above before the workshop. Should you need help, an instructor will be available 30 minutes before the workshop commences to assist._ |