Debian 12 (Bookworm) native package

r-bioc-rsamtools

GNU R binary alignment (BAM), variant call (BCF), or tabix file import

Packages / Debian 12 (Bookworm) / gnu-r / r-bioc-rsamtools

Package: r-bioc-rsamtools (2.14.0-1)

Maintainers:

Debian R Packages Maintainers

External Resources:

Homepage: [bioconductor.org]

GNU R binary alignment (BAM), variant call (BCF), or tabix file import

Other Packages Related to r-bioc-rsamtools:

dep: [r-base-core] (>= 4.2.2.20221110-1)
GNU R core of statistical computation and graphics system
dep: r-api-4.0
Package not available
dep: r-api-bioc-3.16
Package not available
dep: [r-bioc-genomeinfodb] (>= 1.1.3)
BioConductor utilities for manipulating chromosome identifiers
dep: [r-bioc-genomicranges] (>= 1.31.8)
BioConductor representation and manipulation of genomic intervals
dep: [r-bioc-biostrings] (>= 2.47.6)
GNU R string objects representing biological sequences
dep: [r-bioc-biocgenerics] (>= 0.25.1)
generic functions for Bioconductor
dep: [r-bioc-s4vectors] (>= 0.17.25)
BioConductor S4 implementation of vectors and lists
dep: [r-bioc-iranges] (>= 2.13.12)
GNU R low-level containers for storing sets of integer ranges
dep: [r-bioc-xvector] (>= 0.19.7)
BioConductor representation and manpulation of external sequences
dep: [r-bioc-zlibbioc]
(Virtual) zlibbioc Bioconductor package
dep: [r-cran-bitops]
GNU R package implementing bitwise operations
dep: [r-bioc-biocparallel]
BioConductor facilities for parallel evaluation
dep: [r-bioc-rhtslib] (>= 1.99.3)
HTSlib high-throughput sequencing library as GNU R package
dep: [libc6] (>= 2.34)
GNU C Library: Shared libraries
dep: [libcurl4] (>= 7.18.0)
easy-to-use client-side URL transfer library (OpenSSL flavour)
dep: [libgcc-s1] (>= 3.0)
GCC support library
dep: [libstdc++6] (>= 11)
GNU Standard C++ Library v3

sug: [r-bioc-genomicalignments]
BioConductor representation and manipulation of short genomic alignments
sug: [r-bioc-shortread] (>= 1.19.10)
GNU R classes and methods for high-throughput short-read sequencing data
sug: [r-bioc-genomicfeatures]
GNU R tools for making and manipulating transcript centric annotations
sug: [r-cran-runit]
GNU R package providing unit testing framework
sug: [r-bioc-biocstyle]
standard styles for vignettes and other Bioconductor documents

Download r-bioc-rsamtools

Architecture	Package Size	Installed Size	Files
amd64	3.6 MiB	5.6 MiB	[list of files]
arm64	3.5 MiB	5.6 MiB	[list of files]

Package file paths (108)

Paths come from the repository package-file index for the observed builds. They describe archive/package associations, not every file that will exist on a running system after maintainer scripts, alternatives, generated state, diversions, or installation choices.

/usr/lib/R/site-library/Rsamtools/DESCRIPTION
/usr/lib/R/site-library/Rsamtools/doc/index.html
/usr/lib/R/site-library/Rsamtools/doc/Rsamtools-Overview.pdf
/usr/lib/R/site-library/Rsamtools/doc/Rsamtools-Overview.R
/usr/lib/R/site-library/Rsamtools/doc/Rsamtools-Overview.Rnw
/usr/lib/R/site-library/Rsamtools/extdata/ce2dict1.fa
/usr/lib/R/site-library/Rsamtools/extdata/ce2dict1.fa.fai
/usr/lib/R/site-library/Rsamtools/extdata/ex1.bam
/usr/lib/R/site-library/Rsamtools/extdata/ex1.bam.bai
/usr/lib/R/site-library/Rsamtools/extdata/ex1.bcf.gz
/usr/lib/R/site-library/Rsamtools/extdata/ex1.bcf.gz.csi
/usr/lib/R/site-library/Rsamtools/extdata/ex1.sam
/usr/lib/R/site-library/Rsamtools/extdata/ex1.vcf.gz
/usr/lib/R/site-library/Rsamtools/extdata/ex1.vcf.gz.csi
/usr/lib/R/site-library/Rsamtools/extdata/example_from_SAM_Spec.bam
/usr/lib/R/site-library/Rsamtools/extdata/example_from_SAM_Spec.bam.bai
/usr/lib/R/site-library/Rsamtools/extdata/example_from_SAM_Spec.sam
/usr/lib/R/site-library/Rsamtools/extdata/example.gtf.gz
/usr/lib/R/site-library/Rsamtools/extdata/example.gtf.gz.tbi
/usr/lib/R/site-library/Rsamtools/extdata/no_which_buffered_pileup.bam
/usr/lib/R/site-library/Rsamtools/extdata/no_which_buffered_pileup.bam.bai
/usr/lib/R/site-library/Rsamtools/extdata/no_which_buffered_pileup.sam
/usr/lib/R/site-library/Rsamtools/extdata/no_which_whole_file.bam
/usr/lib/R/site-library/Rsamtools/extdata/no_which_whole_file.bam.bai
/usr/lib/R/site-library/Rsamtools/extdata/no_which_whole_file.sam
/usr/lib/R/site-library/Rsamtools/extdata/olaps.Rda
/usr/lib/R/site-library/Rsamtools/extdata/pileup.txt
/usr/lib/R/site-library/Rsamtools/extdata/querybins.bam
/usr/lib/R/site-library/Rsamtools/extdata/querybins.bam.bai
/usr/lib/R/site-library/Rsamtools/extdata/querybins.sam
/usr/lib/R/site-library/Rsamtools/extdata/revbins.bam
/usr/lib/R/site-library/Rsamtools/extdata/revbins.bam.bai
/usr/lib/R/site-library/Rsamtools/extdata/revbins.sam
/usr/lib/R/site-library/Rsamtools/extdata/samtools-github.txt
/usr/lib/R/site-library/Rsamtools/extdata/slxMaq09_urls.txt
/usr/lib/R/site-library/Rsamtools/extdata/tagfilter.bam
/usr/lib/R/site-library/Rsamtools/extdata/tagfilter.bam.bai
/usr/lib/R/site-library/Rsamtools/extdata/tagfilter.sam
/usr/lib/R/site-library/Rsamtools/extdata/tiny.bam
/usr/lib/R/site-library/Rsamtools/extdata/tiny.bam.bai
/usr/lib/R/site-library/Rsamtools/extdata/tiny.sam
/usr/lib/R/site-library/Rsamtools/extdata/tophat/accepted_hits.sam
/usr/lib/R/site-library/Rsamtools/extdata/tophat/coverage.wig
/usr/lib/R/site-library/Rsamtools/extdata/tophat/junctions.bed
/usr/lib/R/site-library/Rsamtools/extdata/tophat/README
/usr/lib/R/site-library/Rsamtools/help/aliases.rds
/usr/lib/R/site-library/Rsamtools/help/AnIndex
/usr/lib/R/site-library/Rsamtools/help/paths.rds
/usr/lib/R/site-library/Rsamtools/help/Rsamtools.rdb
/usr/lib/R/site-library/Rsamtools/help/Rsamtools.rdx
/usr/lib/R/site-library/Rsamtools/html/00Index.html
/usr/lib/R/site-library/Rsamtools/html/R.css
/usr/lib/R/site-library/Rsamtools/INDEX
/usr/lib/R/site-library/Rsamtools/libs/Rsamtools.so
/usr/lib/R/site-library/Rsamtools/Meta/features.rds
/usr/lib/R/site-library/Rsamtools/Meta/hsearch.rds
/usr/lib/R/site-library/Rsamtools/Meta/links.rds
/usr/lib/R/site-library/Rsamtools/Meta/nsInfo.rds
/usr/lib/R/site-library/Rsamtools/Meta/package.rds
/usr/lib/R/site-library/Rsamtools/Meta/Rd.rds
/usr/lib/R/site-library/Rsamtools/Meta/vignette.rds
/usr/lib/R/site-library/Rsamtools/NAMESPACE
/usr/lib/R/site-library/Rsamtools/NEWS
/usr/lib/R/site-library/Rsamtools/R/Rsamtools
/usr/lib/R/site-library/Rsamtools/R/Rsamtools.rdb
/usr/lib/R/site-library/Rsamtools/R/Rsamtools.rdx
/usr/lib/R/site-library/Rsamtools/scripts/BamViews-1000g.R
/usr/lib/R/site-library/Rsamtools/scripts/features.R
/usr/lib/R/site-library/Rsamtools/scripts/remote_test.R
/usr/lib/R/site-library/Rsamtools/scripts/update-samtools.sh
/usr/lib/R/site-library/Rsamtools/unitTests/cases/ex1_noindex.bam
/usr/lib/R/site-library/Rsamtools/unitTests/cases/ex1.sam.gz
/usr/lib/R/site-library/Rsamtools/unitTests/cases/ex1_shuf1000.bam
/usr/lib/R/site-library/Rsamtools/unitTests/cases/ex1_shuf1000.bam.bai
/usr/lib/R/site-library/Rsamtools/unitTests/cases/ex1_unsort.bam
/usr/lib/R/site-library/Rsamtools/unitTests/cases/ex1_zero_index.bam.bai
/usr/lib/R/site-library/Rsamtools/unitTests/cases/no_header_line.vcf.gz
/usr/lib/R/site-library/Rsamtools/unitTests/cases/no_SAMPLE_header.vcf.gz
/usr/lib/R/site-library/Rsamtools/unitTests/cases/pileup-no-stars.txt
/usr/lib/R/site-library/Rsamtools/unitTests/cases/plp_refskip.bam
/usr/lib/R/site-library/Rsamtools/unitTests/cases/plp_refskip.bam.bai
/usr/lib/R/site-library/Rsamtools/unitTests/cases/RNEXT.bam
/usr/lib/R/site-library/Rsamtools/unitTests/test_applyPileups.R
/usr/lib/R/site-library/Rsamtools/unitTests/test_asBam.R
/usr/lib/R/site-library/Rsamtools/unitTests/test_bam_count.R
/usr/lib/R/site-library/Rsamtools/unitTests/test_BamFile.R
/usr/lib/R/site-library/Rsamtools/unitTests/test_bam_header.R
/usr/lib/R/site-library/Rsamtools/unitTests/test_bam.R
/usr/lib/R/site-library/Rsamtools/unitTests/test_BamViews.R
/usr/lib/R/site-library/Rsamtools/unitTests/test_BcfFile.R
/usr/lib/R/site-library/Rsamtools/unitTests/test_compression.R
/usr/lib/R/site-library/Rsamtools/unitTests/test_FaFile.R
/usr/lib/R/site-library/Rsamtools/unitTests/test_mapqfilter.R
/usr/lib/R/site-library/Rsamtools/unitTests/test_phred2ASCIIOffset.R
/usr/lib/R/site-library/Rsamtools/unitTests/test_pileup_nowhich.R
/usr/lib/R/site-library/Rsamtools/unitTests/test_pileup_querybins.R
/usr/lib/R/site-library/Rsamtools/unitTests/test_pileup_revbins.R
/usr/lib/R/site-library/Rsamtools/unitTests/test_pileup_single_range.R
/usr/lib/R/site-library/Rsamtools/unitTests/test_readPileup.R
/usr/lib/R/site-library/Rsamtools/unitTests/test_RsamtoolsFile.R
/usr/lib/R/site-library/Rsamtools/unitTests/test_scanBamFlag.R
/usr/lib/R/site-library/Rsamtools/unitTests/test_sortBam_test.R
/usr/lib/R/site-library/Rsamtools/unitTests/test_TabixFile.R
/usr/lib/R/site-library/Rsamtools/unitTests/test_tagfilter.R
/usr/lib/R/site-library/Rsamtools/unitTests/test_testPairedEndBam.R
/usr/lib/R/site-library/Rsamtools/unitTests/test_utilities.R
/usr/share/doc/r-bioc-rsamtools/changelog.Debian.gz
/usr/share/doc/r-bioc-rsamtools/copyright

Field source: Debian 12 (Bookworm) main amd64 revision bookworm-main-amd64:9e0b5aabb2465b3d2e7a7fe27f9913846277833f7a2826e7767acccff5b588c5

Use this package

OpenFactory can boot this operating system in a browser VM, or start a build that includes the native package name from this record.

Try Debian 12 (Bookworm) in the browser Build an image that includes r-bioc-rsamtools

Versions, suites, and repositories

Each row is recorded package-index metadata for one version, architecture, suite, and repository. Names, URLs, and sizes are source-reported; a link is a potentially mutable retrieval location, not an OpenFactory redistribution claim or proof that OpenFactory retained the artifact bytes.

Version	Release	Architecture	Repository	Package size	Installed size	Publisher repository artifact
2.14.0-1	bookworm / main	amd64	Debian 12 · main · amd64	3.6 MiB	5.6 MiB	pool/main/r/r-bioc-rsamtools/r-bioc-rsamtools_2.14.0-1_amd64.deb
2.14.0-1	bookworm / main	arm64	Debian 12 · main · arm64	3.5 MiB	5.6 MiB	pool/main/r/r-bioc-rsamtools/r-bioc-rsamtools_2.14.0-1_arm64.deb

Field source: Debian 12 (Bookworm) main amd64 revision bookworm-main-amd64:9e0b5aabb2465b3d2e7a7fe27f9913846277833f7a2826e7767acccff5b588c5

Checksums and observation dates

For an APT source, signature verification authenticates the repository metadata chain and the Packages index containing this source-reported artifact digest. It does not certify package safety.

2.14.0-1 / amd64Observed Sep 1, 2026 to Sep 1, 2026

Verification status: Metadata observed; artifact bytes were not independently fetched or hashed by this catalog import. The digest below is source-reported.

Source-reported sha256: edf18f3bf18234bbc5e8550f3bd8be07ba4c3cdc617e165f07dbfc48b51be997

After downloading that exact artifact, compare its bytes with the source-reported expected digest:

printf '%s  %s\n' 'edf18f3bf18234bbc5e8550f3bd8be07ba4c3cdc617e165f07dbfc48b51be997' 'r-bioc-rsamtools_2.14.0-1_amd64.deb' | sha256sum --check --strict -

A match establishes equality with the repository metadata value. It does not establish safety or catalog-side artifact retrieval.

Field source: Debian 12 (Bookworm) main amd64 revision bookworm-main-amd64:9e0b5aabb2465b3d2e7a7fe27f9913846277833f7a2826e7767acccff5b588c5

2.14.0-1 / arm64Observed Sep 1, 2026 to Sep 1, 2026

Verification status: Metadata observed; artifact bytes were not independently fetched or hashed by this catalog import. The digest below is source-reported.

Source-reported sha256: d6b07bf43faf62fe82a3a9b8ca430a4f26aa466e785e40b2b8259f5c312bf879

After downloading that exact artifact, compare its bytes with the source-reported expected digest:

printf '%s  %s\n' 'd6b07bf43faf62fe82a3a9b8ca430a4f26aa466e785e40b2b8259f5c312bf879' 'r-bioc-rsamtools_2.14.0-1_arm64.deb' | sha256sum --check --strict -

A match establishes equality with the repository metadata value. It does not establish safety or catalog-side artifact retrieval.

Field source: Debian 12 (Bookworm) main arm64 revision bookworm-main-arm64:2ddb1737692e8c45c53e8d57c0ce4cd21c78c5703b830c3226b1423566a06c00

Catalog record completeness

The completeness score measures metadata coverage, not software quality, security, compatibility, or suitability.

Summary and description: 25/25
Artifact path and source digest: 25/25
Dependency metadata: 15/15
Package-file index: 15/15
Homepage: 5/5
License text: 0/5
Source package or maintainer: 10/10

Recorded total: 95/100

Field source: Debian 12 (Bookworm) main amd64 revision bookworm-main-amd64:9e0b5aabb2465b3d2e7a7fe27f9913846277833f7a2826e7767acccff5b588c5, Debian 12 (Bookworm) main arm64 revision bookworm-main-arm64:2ddb1737692e8c45c53e8d57c0ce4cd21c78c5703b830c3226b1423566a06c00. The cross-OS mapping is catalog-derived from the source-reported homepage; it does not establish authorship or publisher identity

Sources and provenance

Field-source links above resolve here. Each source entry names the metadata publisher, trust tier, exact snapshot revision, signature result, and observation time; catalog-derived mappings are labeled separately.

Debian 12 (Bookworm) main amd64Sep 1, 2026
Authoritative source; repository metadata signature verified, revision bookworm-main-amd64:9e0b5aabb2465b3d2e7a7fe27f9913846277833f7a2826e7767acccff5b588c5
Signature verification covers the configured repository metadata chain. It does not certify that the package is safe or suitable.
Repository-signature verification record
Signed object
https://deb.debian.org/debian/dists/bookworm/InRelease
Signed-object SHA-256
77737fa4b34f2693e982cc9ee35736816c35a7778fc2d326cc1bbf5b301fe1aa
Signer fingerprint
4CB50190207B4758A3F73A796ED0E7B82643E131
Keyring revision
debian-archive-keyring.gpg
SHA-256 506b815cbb32d9b6066b4a2aa524071e071761e7e7f68c3ac74f3061ba852017
Tool and policy
gpgv (GnuPG) 2.4.9
openfactory-software-catalog-signature-v1
Verification time
Sep 1, 2026
Signed Release → package-index hash linkage
Path: main/binary-amd64/Packages.xz
Expected SHA-256: 9e0b5aabb2465b3d2e7a7fe27f9913846277833f7a2826e7767acccff5b588c5
Observed SHA-256: 9e0b5aabb2465b3d2e7a7fe27f9913846277833f7a2826e7767acccff5b588c5
Result: match verified
Debian 12 (Bookworm) main arm64Sep 1, 2026
Authoritative source; repository metadata signature verified, revision bookworm-main-arm64:2ddb1737692e8c45c53e8d57c0ce4cd21c78c5703b830c3226b1423566a06c00
Signature verification covers the configured repository metadata chain. It does not certify that the package is safe or suitable.
Repository-signature verification record
Signed object
https://deb.debian.org/debian/dists/bookworm/InRelease
Signed-object SHA-256
77737fa4b34f2693e982cc9ee35736816c35a7778fc2d326cc1bbf5b301fe1aa
Signer fingerprint
4CB50190207B4758A3F73A796ED0E7B82643E131
Keyring revision
debian-archive-keyring.gpg
SHA-256 506b815cbb32d9b6066b4a2aa524071e071761e7e7f68c3ac74f3061ba852017
Tool and policy
gpgv (GnuPG) 2.4.9
openfactory-software-catalog-signature-v1
Verification time
Sep 1, 2026
Signed Release → package-index hash linkage
Path: main/binary-arm64/Packages.xz
Expected SHA-256: 2ddb1737692e8c45c53e8d57c0ce4cd21c78c5703b830c3226b1423566a06c00
Observed SHA-256: 2ddb1737692e8c45c53e8d57c0ce4cd21c78c5703b830c3226b1423566a06c00
Result: match verified