danhumassmed/dge_software repository overview

⁠Sofware Provided

This Resository provides the tools needed to take the course Introto rnaseq salmon flipped

https://hbctraining.github.io/main/⁠

⁠Required Software for Differential Gene Expression Analysis

⁠RStudio

⁠R Packages

• BiocManager
• tidyverse
• RColorBrewer
• pheatmap
• ggrepel
• cowplot

⁠Biocondutor Packages

• clusterProfiler
• DOSE
• org.Hs.eg.db
• org.Ce.eg.db
• pathview
• DEGreport
• tximport
• AnnotationHub
• ensembldb

⁠Usage

NOTE: User name for login is rstudio

docker run --rm -p 8787:8787 -e PASSWORD=password -v [DIR_ON_LOCAL_HOST]:/home/rstudio/projects danhumassmed/dge_software:1.0.1

connect with http://127.0.0.1:8787⁠