Question

Rsamtools is not available for (for R version 4.0.2)

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yusuke_suita ▴ 40

@yusuke_suita-23760

Last seen 4.5 years ago

When I try to read a Bamfiel and try to use "Rsamtools" function, then R returns the messagings below.

"Warning in install.packages : package ‘Rsamtools’ is not available (for R version 4.0.2)".

This R version is the latest version. Is there anything else we can do?

Thank you very much for the help!

Rsamtools • 4.7k views

ADD COMMENT • link updated 5 months ago by Paul • 0 • written 4.5 years ago by yusuke_suita ▴ 40

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What command are you using to install Rsamtools? It's hard for people to give advice if you don't show what you've done to get to the error message.

ADD REPLY • link 4.5 years ago Mike Smith ★ 6.6k

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Thank you very much for the answers! After using this (BiocManager::install("Rsamtools")), it worked!

Apology for not having provided the commands, it was my first time to use this forum. Now I got to know how to use it. Thank you very much for the insights!

ADD REPLY • link 4.5 years ago yusuke_suita ▴ 40

score 5 · Answer 1 · 2020-06-29

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ATpoint ★ 4.6k

@atpoint-13662

Last seen 1 day ago

Germany

You seem to be using install.packages for installation. Rsamtools is a Bioconductor package, therefore use BiocManager::install("Rsamtools") after installing Bioconductor as described: https://bioconductor.org/install/

ADD COMMENT • link 4.5 years ago ATpoint ★ 4.6k

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I had the same problem (R 4.2.0) I used BiocManager::install("Rsamtools", force = TRUE)

And it is working fine

ADD REPLY • link 2.6 years ago olinares-perdomo ▴ 20

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R 4.4.x here. adding force=TRUE to BiocManager::install("Rsamtools", ask=FALSE, update=FALSE, force=TRUE) fixed the problem.

ADD REPLY • link 5 months ago Paul • 0