trouble installing DESeq2
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Entering edit mode
eruan1 • 0
@11998381
Last seen 12 days ago
United States

I cannot get DESeq2 to download. I updated to the most recent version of R and get this issue

Error: package or namespace load failed for ‘DESeq2’ in loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]]):
 there is no package called ‘RSQLite’

I have tried doing BiocManager::install("RSQLite") but it still doesn't resolve the issue. Any idea how I can fix this?


if (!requireNamespace("BiocManager", quietly = TRUE))
  install.packages("BiocManager")

BiocManager::install("DESeq2")


sessionInfo( )

Session info:

R version 4.2.0 (2022-04-22)
Platform: x86_64-apple-darwin17.0 (64-bit)
Running under: macOS Big Sur/Monterey 10.16

Matrix products: default
LAPACK: /Library/Frameworks/R.framework/Versions/4.2/Resources/lib/libRlapack.dylib

locale:
[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8

attached base packages:
[1] stats4    stats     graphics  grDevices utils     datasets  methods   base     

other attached packages:
 [1] BiocManager_1.30.17         SummarizedExperiment_1.26.1 Biobase_2.56.0              MatrixGenerics_1.8.0       
 [5] matrixStats_0.62.0          GenomicRanges_1.48.0        GenomeInfoDb_1.32.1         IRanges_2.30.0             
 [9] S4Vectors_0.34.0            BiocGenerics_0.42.0         Matrix_1.4-1               

loaded via a namespace (and not attached):
 [1] Rcpp_1.0.8.3           XVector_0.36.0         zlibbioc_1.42.0        BiocParallel_1.30.0    xtable_1.8-4          
 [6] lattice_0.20-45        R6_2.5.1               httr_1.4.3             tools_4.2.0            parallel_4.2.0        
[11] grid_4.2.0             DBI_1.1.2              GenomeInfoDbData_1.2.8 bitops_1.0-7           RCurl_1.98-1.6        
[16] DelayedArray_0.22.0    compiler_4.2.0         XML_3.99-0.9
install packages R DESeq2 • 85 views
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Entering edit mode
shepherl 3.1k
@lshep
Last seen 1 day ago
United States

Could you please show the installation call for installing RSQLite and any ERROR associated with that call BiocManager::install('RSQLite')

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