trouble installing DESeq2
1
0
Entering edit mode
eruan1 • 0
@11998381
Last seen 2.5 years 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 • 1.4k views
ADD COMMENT
0
Entering edit mode
shepherl 4.1k
@lshep
Last seen 14 hours ago
United States

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

ADD COMMENT

Login before adding your answer.

Traffic: 827 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6