How To Install R-Biobase on Fedora 36

In this tutorial we learn how to install R-Biobase in Fedora 36. R-Biobase is Base functions for Bioconductor

Introduction

In this tutorial we learn how to install R-Biobase on Fedora 36.

What is `R-Biobase`

Base functions for Bioconductor (bioconductor.org). Biobase provides functions that are needed by many other Bioconductor packages or which replace R functions.

We can use yum or dnf to install R-Biobase on Fedora 36. In this tutorial we discuss both methods but you only need to choose one of method to install R-Biobase.

Install R-Biobase on Fedora 36 Using dnf

Update yum database with dnf using the following command.

sudo dnf makecache --refresh

After updating yum database, We can install R-Biobase using dnf by running the following command:

sudo dnf -y install R-Biobase

Install R-Biobase on Fedora 36 Using yum

Update yum database with yum using the following command.

sudo yum makecache --refresh

After updating yum database, We can install R-Biobase using yum by running the following command:

sudo yum -y install R-Biobase

How To Uninstall R-Biobase on Fedora 36

To uninstall only the R-Biobase package we can use the following command:

sudo dnf remove R-Biobase

R-Biobase Package Contents on Fedora 36

/usr/lib/.build-id
/usr/lib/.build-id/03
/usr/lib/.build-id/03/f4930aabe4a61023820b1aad66ae3e680a29c5
/usr/lib64/R/library/Biobase
/usr/lib64/R/library/Biobase/CITATION
/usr/lib64/R/library/Biobase/Code
/usr/lib64/R/library/Biobase/Code/DESCRIPTION
/usr/lib64/R/library/Biobase/Code/R
/usr/lib64/R/library/Biobase/Code/R/get@[email protected]
/usr/lib64/R/library/Biobase/Code/man
/usr/lib64/R/library/Biobase/Code/man/@[email protected]
/usr/lib64/R/library/Biobase/Code/man/get@[email protected]
/usr/lib64/R/library/Biobase/DESCRIPTION
/usr/lib64/R/library/Biobase/ExpressionSet
/usr/lib64/R/library/Biobase/ExpressionSet/DESCRIPTION
/usr/lib64/R/library/Biobase/ExpressionSet/man
/usr/lib64/R/library/Biobase/ExpressionSet/man/@[email protected]
/usr/lib64/R/library/Biobase/INDEX
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/usr/lib64/R/library/Biobase/Meta/data.rds
/usr/lib64/R/library/Biobase/Meta/features.rds
/usr/lib64/R/library/Biobase/Meta/hsearch.rds
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/usr/lib64/R/library/Biobase/Meta/vignette.rds
/usr/lib64/R/library/Biobase/NAMESPACE
/usr/lib64/R/library/Biobase/NEWS
/usr/lib64/R/library/Biobase/R
/usr/lib64/R/library/Biobase/R/Biobase
/usr/lib64/R/library/Biobase/R/Biobase.rdb
/usr/lib64/R/library/Biobase/R/Biobase.rdx
/usr/lib64/R/library/Biobase/data
/usr/lib64/R/library/Biobase/data/SW.rda
/usr/lib64/R/library/Biobase/data/aaMap.R
/usr/lib64/R/library/Biobase/data/geneCov.R
/usr/lib64/R/library/Biobase/data/geneCovariate.rda
/usr/lib64/R/library/Biobase/data/geneData.R
/usr/lib64/R/library/Biobase/data/reporter.rda
/usr/lib64/R/library/Biobase/data/sample.ExpressionSet.rda
/usr/lib64/R/library/Biobase/data/sample.MultiSet.rda
/usr/lib64/R/library/Biobase/data/seD.rda
/usr/lib64/R/library/Biobase/doc
/usr/lib64/R/library/Biobase/doc/BiobaseDevelopment.R
/usr/lib64/R/library/Biobase/doc/BiobaseDevelopment.Rnw
/usr/lib64/R/library/Biobase/doc/BiobaseDevelopment.pdf
/usr/lib64/R/library/Biobase/doc/ExpressionSetIntroduction.R
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/usr/lib64/R/library/Biobase/scripts/query.packages.R
/usr/lib64/R/library/Biobase/testClass.R
/usr/lib64/R/library/Biobase/unitTests
/usr/lib64/R/library/Biobase/unitTests/VersionedClass_data
/usr/lib64/R/library/Biobase/unitTests/VersionedClass_data/1.8
/usr/lib64/R/library/Biobase/unitTests/VersionedClass_data/1.8/AnnotatedDataFrame.Rda
/usr/lib64/R/library/Biobase/unitTests/VersionedClass_data/1.8/ExpressionSet.Rda
/usr/lib64/R/library/Biobase/unitTests/VersionedClass_data/1.8/MIAME.Rda
/usr/lib64/R/library/Biobase/unitTests/VersionedClass_data/1.8/exprSet.Rda
/usr/lib64/R/library/Biobase/unitTests/VersionedClass_data/1.8/phenoData.Rda
/usr/lib64/R/library/Biobase/unitTests/VersionedClass_data/2.0
/usr/lib64/R/library/Biobase/unitTests/VersionedClass_data/2.0/AnnotatedDataFrame.Rda
/usr/lib64/R/library/Biobase/unitTests/VersionedClass_data/2.0/ExpressionSet.Rda
/usr/lib64/R/library/Biobase/unitTests/VersionedClass_data/2.0/MIAME.Rda
/usr/lib64/R/library/Biobase/unitTests/VersionedClass_data/2.0/MultiSet.Rda
/usr/lib64/R/library/Biobase/unitTests/VersionedClass_data/2.0/ScalarCharacter.Rda
/usr/lib64/R/library/Biobase/unitTests/VersionedClass_data/2.0/SnpSet.Rda
/usr/lib64/R/library/Biobase/unitTests/VersionedClass_data/2.0/Versioned.Rda
/usr/lib64/R/library/Biobase/unitTests/VersionedClass_data/2.0/VersionedBiobase.Rda
/usr/lib64/R/library/Biobase/unitTests/VersionedClass_data/2.0/Versions.Rda
/usr/lib64/R/library/Biobase/unitTests/VersionedClass_data/2.0/VersionsNull.Rda
/usr/lib64/R/library/Biobase/unitTests/VersionedClass_data/2.0/aggregator.Rda
/usr/lib64/R/library/Biobase/unitTests/VersionedClass_data/2.0/container.Rda
/usr/lib64/R/library/Biobase/unitTests/VersionedClass_data/2.0/exprSet.Rda
/usr/lib64/R/library/Biobase/unitTests/VersionedClass_data/2.0/phenoData.Rda
/usr/lib64/R/library/Biobase/unitTests/VersionedClass_data/devel
/usr/lib64/R/library/Biobase/unitTests/VersionedClass_data/devel/AnnotatedDataFrame.Rda
/usr/lib64/R/library/Biobase/unitTests/VersionedClass_data/devel/ExpressionSet.Rda
/usr/lib64/R/library/Biobase/unitTests/VersionedClass_data/devel/MIAME.Rda
/usr/lib64/R/library/Biobase/unitTests/VersionedClass_data/devel/MultiSet.Rda
/usr/lib64/R/library/Biobase/unitTests/VersionedClass_data/devel/NChannelSet.Rda
/usr/lib64/R/library/Biobase/unitTests/VersionedClass_data/devel/SWPD.rda
/usr/lib64/R/library/Biobase/unitTests/VersionedClass_data/devel/ScalarCharacter.Rda
/usr/lib64/R/library/Biobase/unitTests/VersionedClass_data/devel/ScalarInteger.Rda
/usr/lib64/R/library/Biobase/unitTests/VersionedClass_data/devel/ScalarLogical.Rda
/usr/lib64/R/library/Biobase/unitTests/VersionedClass_data/devel/ScalarNumeric.Rda
/usr/lib64/R/library/Biobase/unitTests/VersionedClass_data/devel/SnpSet.Rda
/usr/lib64/R/library/Biobase/unitTests/VersionedClass_data/devel/Versioned.Rda
/usr/lib64/R/library/Biobase/unitTests/VersionedClass_data/devel/VersionedBiobase.Rda
/usr/lib64/R/library/Biobase/unitTests/VersionedClass_data/devel/Versions.Rda
/usr/lib64/R/library/Biobase/unitTests/VersionedClass_data/devel/VersionsNull.Rda
/usr/lib64/R/library/Biobase/unitTests/VersionedClass_data/devel/aggregator.Rda
/usr/lib64/R/library/Biobase/unitTests/VersionedClass_data/devel/bbsym.rda
/usr/lib64/R/library/Biobase/unitTests/VersionedClass_data/devel/container.Rda
/usr/lib64/R/library/Biobase/unitTests/VersionedClass_data/devel/eset.rda
/usr/lib64/R/library/Biobase/unitTests/VersionedClass_data/devel/exprSet.Rda
/usr/lib64/R/library/Biobase/unitTests/VersionedClass_data/devel/golubMergeSub.rda
/usr/lib64/R/library/Biobase/unitTests/VersionedClass_data/devel/sample.eSet.rda
/usr/lib64/R/library/Biobase/unitTests/VersionedClass_data/devel/sample.exprSet.1.rda
/usr/lib64/R/library/Biobase/unitTests/VersionedClass_data/devel/sample.exprSet.rda
/usr/lib64/R/library/Biobase/unitTests/VersionedClass_data/devel/swrep.rda
/usr/lib64/R/library/Biobase/unitTests/VersionedClass_data/raw
/usr/lib64/R/library/Biobase/unitTests/VersionedClass_data/raw/exprs.tab
/usr/lib64/R/library/Biobase/unitTests/VersionedClass_data/raw/pData.tab
/usr/lib64/R/library/Biobase/unitTests/VersionedClass_data/raw/varMetadata.tab
/usr/lib64/R/library/Biobase/unitTests/test_AnnotatedDataFrame.R
/usr/lib64/R/library/Biobase/unitTests/test_AssayData.R
/usr/lib64/R/library/Biobase/unitTests/test_DataClasses.R
/usr/lib64/R/library/Biobase/unitTests/test_EsetSubclasses.R
/usr/lib64/R/library/Biobase/unitTests/test_ExpressionSet.R
/usr/lib64/R/library/Biobase/unitTests/test_NChannelSet.R
/usr/lib64/R/library/Biobase/unitTests/test_SnpSet.R
/usr/lib64/R/library/Biobase/unitTests/test_UpdateObject.R
/usr/lib64/R/library/Biobase/unitTests/test_VersionedClass.R
/usr/lib64/R/library/Biobase/unitTests/test_cache.R
/usr/lib64/R/library/Biobase/unitTests/test_checkClass.R
/usr/lib64/R/library/Biobase/unitTests/test_combine.R
/usr/lib64/R/library/Biobase/unitTests/test_copyEnv.R
/usr/lib64/R/library/Biobase/unitTests/test_esApply.R
/usr/lib64/R/library/Biobase/unitTests/test_subListExtract.R
/usr/lib64/R/library/Biobase/unitTests/test_unsaveSetSlot.R
/usr/lib64/R/library/Biobase/unitTests/utilities.R

References

R-Biobase website

Summary

In this tutorial we learn how to install R-Biobase on Fedora 36 using yum and [dnf]((/fedora/36/dnf/).