Hi, everyone, I tried to install packages "TCGAbiolinks" "recount3" "limma" "edgeR" "sva" "pheatmap" "EnhancedVolcano" "org.Hs.eg.db" and "SumarizedExperiment", but after I install those, warning came out and told me I the packages were not installed because of versions issues. I checked online but I still didn't find a exact answer that can solve all those questions. Could any one help me with those? I will put the code and output below.
Thank you! Happy New Year!
BTW, Bioconductor version 3.21 (BiocManager 1.30.27), R 4.5.0 (2025-04-11 ucrt)
```
the code that I used to install packages is copied below
bioconductor_packages <- c( "TCGAbiolinks", "recount3", "SummarizedExperiment",
"limma", "edgeR", "sva",
"pheatmap", "EnhancedVolcano",
"org.Hs.eg.db" )
BiocManager::install(bioconductor_packages, ask = FALSE, update = FALSE)
the warning messages are below:
Warning messages:
package(s) not installed when version(s) same as or greater than
current; use force = TRUE to re-install: "TCGAbiolinks" "recount3"
"limma" "edgeR" "sva" "pheatmap" "EnhancedVolcano" "org.Hs.eg.db"
Other outputs, I don't know if it's helpful but I put it in here also:
'getOption("repos")' replaces Bioconductor standard repositories, see 'help("repositories", package = "BiocManager")' for details. Replacement repositories: CRAN: https://cran.rstudio.com/ Bioconductor version 3.21 (BiocManager 1.30.27), R 4.5.0 (2025-04-11 ucrt) Installing package(s) 'SumarizedExperiment'
