How To Install R-BSgenome on Fedora 36

In this tutorial we learn how to install R-BSgenome in Fedora 36. R-BSgenome is Infrastructure for Biostrings-based genome data packages

Introduction

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

What is `R-BSgenome`

Infrastructure shared by all the Biostrings-based genome data packages

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

Install R-BSgenome 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-BSgenome using dnf by running the following command:

sudo dnf -y install R-BSgenome

Install R-BSgenome 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-BSgenome using yum by running the following command:

sudo yum -y install R-BSgenome

How To Uninstall R-BSgenome on Fedora 36

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

sudo dnf remove R-BSgenome

R-BSgenome Package Contents on Fedora 36

/usr/share/R/library/BSgenome
/usr/share/R/library/BSgenome/DESCRIPTION
/usr/share/R/library/BSgenome/INDEX
/usr/share/R/library/BSgenome/Meta
/usr/share/R/library/BSgenome/Meta/Rd.rds
/usr/share/R/library/BSgenome/Meta/features.rds
/usr/share/R/library/BSgenome/Meta/hsearch.rds
/usr/share/R/library/BSgenome/Meta/links.rds
/usr/share/R/library/BSgenome/Meta/nsInfo.rds
/usr/share/R/library/BSgenome/Meta/package.rds
/usr/share/R/library/BSgenome/Meta/vignette.rds
/usr/share/R/library/BSgenome/NAMESPACE
/usr/share/R/library/BSgenome/NEWS
/usr/share/R/library/BSgenome/R
/usr/share/R/library/BSgenome/R/BSgenome
/usr/share/R/library/BSgenome/R/BSgenome.rdb
/usr/share/R/library/BSgenome/R/BSgenome.rdx
/usr/share/R/library/BSgenome/doc
/usr/share/R/library/BSgenome/doc/BSgenomeForge.R
/usr/share/R/library/BSgenome/doc/BSgenomeForge.Rnw
/usr/share/R/library/BSgenome/doc/BSgenomeForge.pdf
/usr/share/R/library/BSgenome/doc/GenomeSearching.R
/usr/share/R/library/BSgenome/doc/GenomeSearching.Rnw
/usr/share/R/library/BSgenome/doc/GenomeSearching.pdf
/usr/share/R/library/BSgenome/doc/index.html
/usr/share/R/library/BSgenome/extdata
/usr/share/R/library/BSgenome/extdata/GentlemanLab
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/usr/share/R/library/BSgenome/extdata/GentlemanLab/BSgenome.Amellifera.BeeBase.assembly4-tools
/usr/share/R/library/BSgenome/extdata/GentlemanLab/BSgenome.Amellifera.BeeBase.assembly4-tools/NOTES.TXT
/usr/share/R/library/BSgenome/extdata/GentlemanLab/BSgenome.Amellifera.BeeBase.assembly4-tools/splitbigfasta.sh
/usr/share/R/library/BSgenome/extdata/GentlemanLab/BSgenome.Amellifera.NCBI.AmelHAv3.1-seed
/usr/share/R/library/BSgenome/extdata/GentlemanLab/BSgenome.Amellifera.NCBI.AmelHAv3.1-tools
/usr/share/R/library/BSgenome/extdata/GentlemanLab/BSgenome.Amellifera.NCBI.AmelHAv3.1-tools/fasta_to_sorted_2bit.R
/usr/share/R/library/BSgenome/extdata/GentlemanLab/BSgenome.Amellifera.UCSC.apiMel2-seed
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/usr/share/R/library/BSgenome/extdata/GentlemanLab/BSgenome.Athaliana.TAIR.04232008-seed
/usr/share/R/library/BSgenome/extdata/GentlemanLab/BSgenome.Athaliana.TAIR.TAIR10.1-seed
/usr/share/R/library/BSgenome/extdata/GentlemanLab/BSgenome.Athaliana.TAIR.TAIR10.1-tools
/usr/share/R/library/BSgenome/extdata/GentlemanLab/BSgenome.Athaliana.TAIR.TAIR10.1-tools/splitbigfasta.R
/usr/share/R/library/BSgenome/extdata/GentlemanLab/BSgenome.Athaliana.TAIR.TAIR9-seed
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/usr/share/R/library/BSgenome/extdata/GentlemanLab/BSgenome.Athaliana.TAIR.TAIR9-tools/NOTES.TXT
/usr/share/R/library/BSgenome/extdata/GentlemanLab/BSgenome.Btaurus.UCSC.bosTau3-seed
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/usr/share/R/library/BSgenome/extdata/GentlemanLab/BSgenome.Btaurus.UCSC.bosTau4-seed
/usr/share/R/library/BSgenome/extdata/GentlemanLab/BSgenome.Btaurus.UCSC.bosTau4.masked-seed
/usr/share/R/library/BSgenome/extdata/GentlemanLab/BSgenome.Btaurus.UCSC.bosTau6-seed
/usr/share/R/library/BSgenome/extdata/GentlemanLab/BSgenome.Btaurus.UCSC.bosTau6-tools
/usr/share/R/library/BSgenome/extdata/GentlemanLab/BSgenome.Btaurus.UCSC.bosTau6-tools/splitbigfasta.R
/usr/share/R/library/BSgenome/extdata/GentlemanLab/BSgenome.Btaurus.UCSC.bosTau6.masked-seed
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/usr/share/R/library/BSgenome/extdata/GentlemanLab/BSgenome.Btaurus.UCSC.bosTau9-tools
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/usr/share/R/library/BSgenome/extdata/GentlemanLab/BSgenome.Drerio.UCSC.danRer5-tools/NOTES.TXT
/usr/share/R/library/BSgenome/extdata/GentlemanLab/BSgenome.Drerio.UCSC.danRer5-tools/splitbigfasta.sh
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/usr/share/R/library/BSgenome/extdata/GentlemanLab/BSgenome.Drerio.UCSC.danRer6-tools/NOTES.TXT
/usr/share/R/library/BSgenome/extdata/GentlemanLab/BSgenome.Drerio.UCSC.danRer6-tools/splitbigfasta.R
/usr/share/R/library/BSgenome/extdata/GentlemanLab/BSgenome.Drerio.UCSC.danRer6.masked-seed
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/usr/share/R/library/BSgenome/extdata/GentlemanLab/BSgenome.Drerio.UCSC.danRer7-tools/NOTES.TXT
/usr/share/R/library/BSgenome/extdata/GentlemanLab/BSgenome.Drerio.UCSC.danRer7-tools/splitbigfasta.R
/usr/share/R/library/BSgenome/extdata/GentlemanLab/BSgenome.Drerio.UCSC.danRer7.masked-seed
/usr/share/R/library/BSgenome/extdata/GentlemanLab/BSgenome.Dvirilis.Ensembl.dvircaf1-seed
/usr/share/R/library/BSgenome/extdata/GentlemanLab/BSgenome.Ecoli.NCBI.20080805-seed
/usr/share/R/library/BSgenome/extdata/GentlemanLab/BSgenome.Gaculeatus.UCSC.gasAcu1-seed
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/usr/share/R/library/BSgenome/extdata/GentlemanLab/BSgenome.Ggallus.UCSC.galGal3-seed
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/usr/share/R/library/BSgenome/extdata/GentlemanLab/BSgenome.Ggallus.UCSC.galGal4-tools
/usr/share/R/library/BSgenome/extdata/GentlemanLab/BSgenome.Ggallus.UCSC.galGal4-tools/splitbigfasta.R
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/usr/share/R/library/BSgenome/extdata/GentlemanLab/BSgenome.Hsapiens.NCBI.GRCh38-seed
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/usr/share/R/library/BSgenome/help/snplocs+2CODLT_SNPlocs-method.html
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/usr/share/R/library/BSgenome/help/snplocs+2CSNPlocs-method.html
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/usr/share/R/library/BSgenome/help/snpsById+2CODLT_SNPlocs-method.html
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/usr/share/R/library/BSgenome/help/snpsById.html
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/usr/share/R/library/BSgenome/help/snpsByOverlaps.html
/usr/share/R/library/BSgenome/help/snpsBySeqname+2CODLT_SNPlocs-method.html
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/usr/share/R/library/BSgenome/help/sourceUrl+2CBSgenome-method.html
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/usr/share/R/library/BSgenome/help/uniqueLetters+2CBSgenomeViews-method.html
/usr/share/R/library/BSgenome/help/unlist+2CBSgenomeViews-method.html
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/usr/share/R/library/BSgenome/help/vmatchPDict+2CBSgenome-method.html
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/usr/share/R/library/BSgenome/help/width+2CBSgenomeViews-method.html
/usr/share/R/library/BSgenome/help/writeBSgenomeToFasta.html
/usr/share/R/library/BSgenome/help/writeBSgenomeToTwobit.html
/usr/share/R/library/BSgenome/html
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/usr/share/R/library/BSgenome/html/BSParams-class.html
/usr/share/R/library/BSgenome/html/BSgenome-class.html
/usr/share/R/library/BSgenome/html/BSgenome-utils.html
/usr/share/R/library/BSgenome/html/BSgenomeForge.html
/usr/share/R/library/BSgenome/html/BSgenomeViews-class.html
/usr/share/R/library/BSgenome/html/R.css
/usr/share/R/library/BSgenome/html/SNPlocs-class.html
/usr/share/R/library/BSgenome/html/XtraSNPlocs-class.html
/usr/share/R/library/BSgenome/html/available.genomes.html
/usr/share/R/library/BSgenome/html/bsapply.html
/usr/share/R/library/BSgenome/html/export-methods.html
/usr/share/R/library/BSgenome/html/getSeq-methods.html
/usr/share/R/library/BSgenome/html/injectSNPs.html
/usr/share/R/library/BSgenome/pkgtemplates
/usr/share/R/library/BSgenome/pkgtemplates/BSgenome_datapkg
/usr/share/R/library/BSgenome/pkgtemplates/BSgenome_datapkg/DESCRIPTION
/usr/share/R/library/BSgenome/pkgtemplates/BSgenome_datapkg/NAMESPACE
/usr/share/R/library/BSgenome/pkgtemplates/BSgenome_datapkg/R
/usr/share/R/library/BSgenome/pkgtemplates/BSgenome_datapkg/R/zzz.R
/usr/share/R/library/BSgenome/pkgtemplates/BSgenome_datapkg/inst
/usr/share/R/library/BSgenome/pkgtemplates/BSgenome_datapkg/inst/extdata
/usr/share/R/library/BSgenome/pkgtemplates/BSgenome_datapkg/man
/usr/share/R/library/BSgenome/pkgtemplates/BSgenome_datapkg/man/package.Rd
/usr/share/R/library/BSgenome/pkgtemplates/MaskedBSgenome_datapkg
/usr/share/R/library/BSgenome/pkgtemplates/MaskedBSgenome_datapkg/DESCRIPTION
/usr/share/R/library/BSgenome/pkgtemplates/MaskedBSgenome_datapkg/NAMESPACE
/usr/share/R/library/BSgenome/pkgtemplates/MaskedBSgenome_datapkg/R
/usr/share/R/library/BSgenome/pkgtemplates/MaskedBSgenome_datapkg/R/zzz.R
/usr/share/R/library/BSgenome/pkgtemplates/MaskedBSgenome_datapkg/inst
/usr/share/R/library/BSgenome/pkgtemplates/MaskedBSgenome_datapkg/inst/extdata
/usr/share/R/library/BSgenome/pkgtemplates/MaskedBSgenome_datapkg/man
/usr/share/R/library/BSgenome/pkgtemplates/MaskedBSgenome_datapkg/man/package.Rd

References

R-BSgenome website

Summary

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