How To Install R-Rsamtools on Fedora 36
In this tutorial we learn how to install R-Rsamtools in Fedora 36. R-Rsamtools is R interface to samtools
Introduction
In this tutorial we learn how to install R-Rsamtools on Fedora 36.
What is R-Rsamtools
This package provides an interface to the ‘samtools’, ‘bcftools’, and ’tabix’ utilities (see ‘LICENCE’) for manipulating SAM (Sequence Alignment / Map), binary variant call (BCF) and compressed indexed tab-delimited (tabix) files.
We can use yum or dnf to install R-Rsamtools on Fedora 36. In this tutorial we discuss both methods but you only need to choose one of method to install R-Rsamtools.
Install R-Rsamtools 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-Rsamtools using dnf by running the following command:
sudo dnf -y install R-Rsamtools
Install R-Rsamtools 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-Rsamtools using yum by running the following command:
sudo yum -y install R-Rsamtools
How To Uninstall R-Rsamtools on Fedora 36
To uninstall only the R-Rsamtools package we can use the following command:
sudo dnf remove R-Rsamtools
R-Rsamtools Package Contents on Fedora 36
/usr/lib/.build-id
/usr/lib/.build-id/6d
/usr/lib/.build-id/6d/e7b8981e29a5894ec91996ce3bd91ca72b9112
/usr/lib64/R/library/Rsamtools
/usr/lib64/R/library/Rsamtools/DESCRIPTION
/usr/lib64/R/library/Rsamtools/INDEX
/usr/lib64/R/library/Rsamtools/LICENSE
/usr/lib64/R/library/Rsamtools/Meta
/usr/lib64/R/library/Rsamtools/Meta/Rd.rds
/usr/lib64/R/library/Rsamtools/Meta/features.rds
/usr/lib64/R/library/Rsamtools/Meta/hsearch.rds
/usr/lib64/R/library/Rsamtools/Meta/links.rds
/usr/lib64/R/library/Rsamtools/Meta/nsInfo.rds
/usr/lib64/R/library/Rsamtools/Meta/package.rds
/usr/lib64/R/library/Rsamtools/Meta/vignette.rds
/usr/lib64/R/library/Rsamtools/NAMESPACE
/usr/lib64/R/library/Rsamtools/NEWS
/usr/lib64/R/library/Rsamtools/R
/usr/lib64/R/library/Rsamtools/R/Rsamtools
/usr/lib64/R/library/Rsamtools/R/Rsamtools.rdb
/usr/lib64/R/library/Rsamtools/R/Rsamtools.rdx
/usr/lib64/R/library/Rsamtools/doc
/usr/lib64/R/library/Rsamtools/doc/Rsamtools-Overview.R
/usr/lib64/R/library/Rsamtools/doc/Rsamtools-Overview.Rnw
/usr/lib64/R/library/Rsamtools/doc/Rsamtools-Overview.pdf
/usr/lib64/R/library/Rsamtools/doc/index.html
/usr/lib64/R/library/Rsamtools/extdata
/usr/lib64/R/library/Rsamtools/extdata/ce2dict1.fa
/usr/lib64/R/library/Rsamtools/extdata/ce2dict1.fa.fai
/usr/lib64/R/library/Rsamtools/extdata/ex1.bam
/usr/lib64/R/library/Rsamtools/extdata/ex1.bam.bai
/usr/lib64/R/library/Rsamtools/extdata/ex1.bcf.gz
/usr/lib64/R/library/Rsamtools/extdata/ex1.bcf.gz.csi
/usr/lib64/R/library/Rsamtools/extdata/ex1.sam
/usr/lib64/R/library/Rsamtools/extdata/ex1.vcf.gz
/usr/lib64/R/library/Rsamtools/extdata/ex1.vcf.gz.csi
/usr/lib64/R/library/Rsamtools/extdata/example.gtf.gz
/usr/lib64/R/library/Rsamtools/extdata/example.gtf.gz.tbi
/usr/lib64/R/library/Rsamtools/extdata/example_from_SAM_Spec.bam
/usr/lib64/R/library/Rsamtools/extdata/example_from_SAM_Spec.bam.bai
/usr/lib64/R/library/Rsamtools/extdata/example_from_SAM_Spec.sam
/usr/lib64/R/library/Rsamtools/extdata/no_which_buffered_pileup.bam
/usr/lib64/R/library/Rsamtools/extdata/no_which_buffered_pileup.bam.bai
/usr/lib64/R/library/Rsamtools/extdata/no_which_buffered_pileup.sam
/usr/lib64/R/library/Rsamtools/extdata/no_which_whole_file.bam
/usr/lib64/R/library/Rsamtools/extdata/no_which_whole_file.bam.bai
/usr/lib64/R/library/Rsamtools/extdata/no_which_whole_file.sam
/usr/lib64/R/library/Rsamtools/extdata/olaps.Rda
/usr/lib64/R/library/Rsamtools/extdata/pileup.txt
/usr/lib64/R/library/Rsamtools/extdata/querybins.bam
/usr/lib64/R/library/Rsamtools/extdata/querybins.bam.bai
/usr/lib64/R/library/Rsamtools/extdata/querybins.sam
/usr/lib64/R/library/Rsamtools/extdata/revbins.bam
/usr/lib64/R/library/Rsamtools/extdata/revbins.bam.bai
/usr/lib64/R/library/Rsamtools/extdata/revbins.sam
/usr/lib64/R/library/Rsamtools/extdata/samtools-github.txt
/usr/lib64/R/library/Rsamtools/extdata/slxMaq09_urls.txt
/usr/lib64/R/library/Rsamtools/extdata/tagfilter.bam
/usr/lib64/R/library/Rsamtools/extdata/tagfilter.bam.bai
/usr/lib64/R/library/Rsamtools/extdata/tagfilter.sam
/usr/lib64/R/library/Rsamtools/extdata/tiny.bam
/usr/lib64/R/library/Rsamtools/extdata/tiny.bam.bai
/usr/lib64/R/library/Rsamtools/extdata/tiny.sam
/usr/lib64/R/library/Rsamtools/extdata/tophat
/usr/lib64/R/library/Rsamtools/extdata/tophat/README
/usr/lib64/R/library/Rsamtools/extdata/tophat/accepted_hits.sam
/usr/lib64/R/library/Rsamtools/extdata/tophat/coverage.wig
/usr/lib64/R/library/Rsamtools/extdata/tophat/junctions.bed
/usr/lib64/R/library/Rsamtools/help
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/usr/lib64/R/library/Rsamtools/help/+5B+2CBamViews+2CANY+2Cmissing-method.html
/usr/lib64/R/library/Rsamtools/help/+5B+2CBamViews+2Cmissing+2CANY-method.html
/usr/lib64/R/library/Rsamtools/help/AnIndex
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/usr/lib64/R/library/Rsamtools/help/ApplyPileupsParam.html
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/usr/lib64/R/library/Rsamtools/help/ScanBamParam-class.html
/usr/lib64/R/library/Rsamtools/help/ScanBamParam.html
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/usr/lib64/R/library/Rsamtools/help/ScanBcfParam+2Cmissing-method.html
/usr/lib64/R/library/Rsamtools/help/ScanBcfParam-class.html
/usr/lib64/R/library/Rsamtools/help/ScanBcfParam.html
/usr/lib64/R/library/Rsamtools/help/TabixFile-class.html
/usr/lib64/R/library/Rsamtools/help/TabixFile.html
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/usr/lib64/R/library/Rsamtools/help/TabixFileList.html
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/usr/lib64/R/library/Rsamtools/scripts/features.R
/usr/lib64/R/library/Rsamtools/scripts/remote_test.R
/usr/lib64/R/library/Rsamtools/scripts/update-samtools.sh
/usr/lib64/R/library/Rsamtools/unitTests
/usr/lib64/R/library/Rsamtools/unitTests/cases
/usr/lib64/R/library/Rsamtools/unitTests/cases/RNEXT.bam
/usr/lib64/R/library/Rsamtools/unitTests/cases/ex1.sam.gz
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/usr/lib64/R/library/Rsamtools/unitTests/cases/ex1_shuf1000.bam
/usr/lib64/R/library/Rsamtools/unitTests/cases/ex1_shuf1000.bam.bai
/usr/lib64/R/library/Rsamtools/unitTests/cases/ex1_unsort.bam
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/usr/lib64/R/library/Rsamtools/unitTests/cases/plp_refskip.bam.bai
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/usr/lib64/R/library/Rsamtools/unitTests/test_BamViews.R
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/usr/lib64/R/library/Rsamtools/unitTests/test_TabixFile.R
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/usr/lib64/R/library/Rsamtools/unitTests/test_asBam.R
/usr/lib64/R/library/Rsamtools/unitTests/test_bam.R
/usr/lib64/R/library/Rsamtools/unitTests/test_bam_count.R
/usr/lib64/R/library/Rsamtools/unitTests/test_bam_header.R
/usr/lib64/R/library/Rsamtools/unitTests/test_compression.R
/usr/lib64/R/library/Rsamtools/unitTests/test_mapqfilter.R
/usr/lib64/R/library/Rsamtools/unitTests/test_phred2ASCIIOffset.R
/usr/lib64/R/library/Rsamtools/unitTests/test_pileup_nowhich.R
/usr/lib64/R/library/Rsamtools/unitTests/test_pileup_querybins.R
/usr/lib64/R/library/Rsamtools/unitTests/test_pileup_revbins.R
/usr/lib64/R/library/Rsamtools/unitTests/test_pileup_single_range.R
/usr/lib64/R/library/Rsamtools/unitTests/test_readPileup.R
/usr/lib64/R/library/Rsamtools/unitTests/test_scanBamFlag.R
/usr/lib64/R/library/Rsamtools/unitTests/test_sortBam_test.R
/usr/lib64/R/library/Rsamtools/unitTests/test_tagfilter.R
/usr/lib64/R/library/Rsamtools/unitTests/test_testPairedEndBam.R
/usr/lib64/R/library/Rsamtools/unitTests/test_utilities.R
References
Summary
In this tutorial we learn how to install R-Rsamtools on Fedora 36 using yum and [dnf]((/fedora/36/dnf/).