Rbowtie2 on windows
Entering edit mode
Ahmed • 0
Last seen 9 months ago

Hello, Does Rbowtie2 not install on windows? I tried using the usual way for installation, and tried adding the compatible Rtools, but BiocManager still cannot install it.

Rbowtie2 • 304 views
Entering edit mode
Last seen 10 hours ago
United States

Works for me.

> install("Rbowtie2")
'getOption("repos")' replaces Bioconductor standard repositories, see
'help("repositories", package = "BiocManager")' for details.
Replacement repositories:
    CRAN: https://cran.rstudio.org
Bioconductor version 3.17 (BiocManager, R 4.3.0 (2023-04-21 ucrt)
Installing package(s) 'Rbowtie2'
trying URL 'https://bioconductor.org/packages/3.17/bioc/bin/windows/contrib/4.3/Rbowtie2_2.6.0.zip'
Content type 'application/zip' length 19356227 bytes (18.5 MB)
downloaded 18.5 MB

package 'Rbowtie2' successfully unpacked and MD5 sums checked

The downloaded binary packages are in

> sessionInfo()
R version 4.3.0 (2023-04-21 ucrt)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows 11 x64 (build 22621)

Matrix products: default

[1] LC_COLLATE=English_United States.utf8 
[2] LC_CTYPE=English_United States.utf8   
[3] LC_MONETARY=English_United States.utf8
[4] LC_NUMERIC=C                          
[5] LC_TIME=English_United States.utf8    

time zone: America/New_York
tzcode source: internal

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

other attached packages:
[1] BiocManager_1.30.21.1

loaded via a namespace (and not attached):
[1] compiler_4.3.0 tools_4.3.0

In future, you should provide the code you used, the output messages, and the output from sessionInfo. Please note that there is this whole bit of text that comes up in the posting window that looks like this:

Code should be placed in three backticks as shown below


# include your problematic code here with any corresponding output 
# please also include the results of running the following in an R session 

sessionInfo( )

That you apparently just deleted without reading. Or decided it didn't apply? If you want help, you should at least try to provide what's asked of you.

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