Debian 13 (Trixie) native package

r-bioc-cner

CNE Detection and Visualization

Packages / Debian 13 (Trixie) / gnu-r / r-bioc-cner

Package: r-bioc-cner (1.42.0+dfsg-3)

Maintainers:

Debian R Packages Maintainers

External Resources:

Homepage: [bioconductor.org]

CNE Detection and Visualization

Other Packages Related to r-bioc-cner:

dep: r-api-4.0
Package not available
dep: r-api-bioc-3.20
Package not available
dep: [r-bioc-biostrings] (>= 2.33.4)
GNU R string objects representing biological sequences
dep: [r-bioc-pwalign]
Perform pairwise sequence alignments
dep: [r-cran-dbi] (>= 0.7)
GNU R package providing a generic database interface
dep: [r-cran-rsqlite] (>= 0.11.4)
Database Interface R driver for SQLite
dep: [r-bioc-genomeinfodb] (>= 1.1.3)
BioConductor utilities for manipulating chromosome identifiers
dep: [r-bioc-genomicranges] (>= 1.23.16)
BioConductor representation and manipulation of genomic intervals
dep: [r-bioc-rtracklayer] (>= 1.25.5)
GNU R interface to genome browsers and their annotation tracks
dep: [r-bioc-xvector] (>= 0.5.4)
BioConductor representation and manpulation of external sequences
dep: [r-bioc-genomicalignments] (>= 1.1.9)
BioConductor representation and manipulation of short genomic alignments
dep: [r-bioc-s4vectors] (>= 0.13.13)
BioConductor S4 implementation of vectors and lists
dep: [r-bioc-iranges] (>= 2.5.27)
GNU R low-level containers for storing sets of integer ranges
dep: [r-cran-readr] (>= 0.2.2)
GNU R package to read rectangular text data
dep: [r-bioc-biocgenerics]
generic functions for Bioconductor
dep: [r-cran-reshape2] (>= 1.4.1)
Flexibly reshape data: a reboot of the reshape package
dep: [r-cran-ggplot2] (>= 2.1.0)
implementation of the Grammar of Graphics
dep: [r-cran-powerlaw] (>= 0.60.3)
GNU R analysis of heavy tailed distributions
dep: [r-bioc-annotate] (>= 1.50.0)
BioConductor annotation for microarrays
dep: [r-bioc-go.db] (>= 3.3.0)
annotation maps describing the entire Gene Ontology
dep: [r-cran-r.utils] (>= 2.3.0)
GNU R various programming utilities
dep: [r-bioc-keggrest] (>= 1.14.0)
GNU R client-side REST access to KEGG
dep: [libc6] (>= 2.38)
GNU C Library: Shared libraries

sug: [r-bioc-gviz] (>= 1.7.4)
Plotting data and annotation information along genomic coordinates
sug: [r-bioc-biocstyle]
standard styles for vignettes and other Bioconductor documents
sug: [r-cran-knitr]
GNU R package for dynamic report generation using Literate Programming
sug: [r-cran-rmarkdown]
convert R markdown documents into a variety of formats
sug: [r-cran-testthat]
GNU R testsuite

Download r-bioc-cner

Architecture	Package Size	Installed Size	Files
amd64	8.0 MiB	18 MiB	[list of files]
arm64	8.0 MiB	18 MiB	[list of files]

Package file paths (60)

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/CNEr/CITATION
/usr/lib/R/site-library/CNEr/data/axisTrack.rda
/usr/lib/R/site-library/CNEr/data/CNEDanRer10Hg38.rda
/usr/lib/R/site-library/CNEr/data/cneFinalListDanRer10Hg38.rda
/usr/lib/R/site-library/CNEr/data/CNEHg38DanRer10.rda
/usr/lib/R/site-library/CNEr/data/cpgIslands.rda
/usr/lib/R/site-library/CNEr/data/grangesPairsForDotplot.rda
/usr/lib/R/site-library/CNEr/data/refGenes.rda
/usr/lib/R/site-library/CNEr/DESCRIPTION
/usr/lib/R/site-library/CNEr/doc/CNEr.R
/usr/lib/R/site-library/CNEr/doc/CNEr.Rmd
/usr/lib/R/site-library/CNEr/doc/index.html
/usr/lib/R/site-library/CNEr/doc/PairwiseWholeGenomeAlignment.R
/usr/lib/R/site-library/CNEr/doc/PairwiseWholeGenomeAlignment.Rmd
/usr/lib/R/site-library/CNEr/extdata/chr4.hg19.galGal3.net.axt.gz
/usr/lib/R/site-library/CNEr/extdata/cne2wBf_AstMex102_danRer10_48_50
/usr/lib/R/site-library/CNEr/extdata/cne2wBf_cteIde1_danRer10_100_100
/usr/lib/R/site-library/CNEr/extdata/cne2wBf_cypCar1_danRer10_100_100
/usr/lib/R/site-library/CNEr/extdata/cne2wBf_danRer10_hg38_45_50
/usr/lib/R/site-library/CNEr/extdata/danRer10CNE.sqlite
/usr/lib/R/site-library/CNEr/extdata/danRer10.hg38.net.axt
/usr/lib/R/site-library/CNEr/extdata/filter_regions.danRer10.bed
/usr/lib/R/site-library/CNEr/extdata/filter_regions.hg38.bed
/usr/lib/R/site-library/CNEr/extdata/hg38.danRer10.net.axt
/usr/lib/R/site-library/CNEr/extdata/rmsk.fa
/usr/lib/R/site-library/CNEr/help/aliases.rds
/usr/lib/R/site-library/CNEr/help/AnIndex
/usr/lib/R/site-library/CNEr/help/CNEr.rdb
/usr/lib/R/site-library/CNEr/help/CNEr.rdx
/usr/lib/R/site-library/CNEr/help/paths.rds
/usr/lib/R/site-library/CNEr/html/00Index.html
/usr/lib/R/site-library/CNEr/html/R.css
/usr/lib/R/site-library/CNEr/INDEX
/usr/lib/R/site-library/CNEr/libs/CNEr.so
/usr/lib/R/site-library/CNEr/Meta/data.rds
/usr/lib/R/site-library/CNEr/Meta/features.rds
/usr/lib/R/site-library/CNEr/Meta/hsearch.rds
/usr/lib/R/site-library/CNEr/Meta/links.rds
/usr/lib/R/site-library/CNEr/Meta/nsInfo.rds
/usr/lib/R/site-library/CNEr/Meta/package.rds
/usr/lib/R/site-library/CNEr/Meta/Rd.rds
/usr/lib/R/site-library/CNEr/Meta/vignette.rds
/usr/lib/R/site-library/CNEr/NAMESPACE
/usr/lib/R/site-library/CNEr/NEWS
/usr/lib/R/site-library/CNEr/obsolete/alignment.c
/usr/lib/R/site-library/CNEr/obsolete/ceScan.r
/usr/lib/R/site-library/CNEr/obsolete/ceScanR.r
/usr/lib/R/site-library/CNEr/obsolete/class.r
/usr/lib/R/site-library/CNEr/obsolete/CNEr.Rnw
/usr/lib/R/site-library/CNEr/obsolete/src/ceScanBranch1.c
/usr/lib/R/site-library/CNEr/obsolete/src/ceScanBranch2.c
/usr/lib/R/site-library/CNEr/obsolete/src/ceScan.c
/usr/lib/R/site-library/CNEr/obsolete/src/compile
/usr/lib/R/site-library/CNEr/R/CNEr
/usr/lib/R/site-library/CNEr/R/CNEr.rdb
/usr/lib/R/site-library/CNEr/R/CNEr.rdx
/usr/lib/R/site-library/CNEr/scripts/danRer10Pipeline.R
/usr/lib/R/site-library/CNEr/scripts/prepareData.R
/usr/share/doc/r-bioc-cner/changelog.Debian.gz
/usr/share/doc/r-bioc-cner/copyright

Field source: Debian 13 (Trixie) main amd64 revision trixie-main-amd64:3ab4e811cf4f3e5a335d382c58cc19d85f1abe7a4ef4689160ca1f637fa0e9b3

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 13 (Trixie) in the browser Build an image that includes r-bioc-cner

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
1.42.0+dfsg-3	trixie / main	amd64	Debian 13 · main · amd64	8.0 MiB	18 MiB	pool/main/r/r-bioc-cner/r-bioc-cner_1.42.0+dfsg-3_amd64.deb
1.42.0+dfsg-3	trixie / main	arm64	Debian 13 · main · arm64	8.0 MiB	18 MiB	pool/main/r/r-bioc-cner/r-bioc-cner_1.42.0+dfsg-3_arm64.deb

Field source: Debian 13 (Trixie) main amd64 revision trixie-main-amd64:3ab4e811cf4f3e5a335d382c58cc19d85f1abe7a4ef4689160ca1f637fa0e9b3

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.

1.42.0+dfsg-3 / 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: 81d947d381ca6cfd94eb810120d527c9446020c8f820031fc9b3461c2506d6bc

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

printf '%s  %s\n' '81d947d381ca6cfd94eb810120d527c9446020c8f820031fc9b3461c2506d6bc' 'r-bioc-cner_1.42.0+dfsg-3_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 13 (Trixie) main amd64 revision trixie-main-amd64:3ab4e811cf4f3e5a335d382c58cc19d85f1abe7a4ef4689160ca1f637fa0e9b3

1.42.0+dfsg-3 / 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: a6fd911d48bd16c837f46ec90e3752dd73260ae021c5e5869b8d6b1acc0d0632

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

printf '%s  %s\n' 'a6fd911d48bd16c837f46ec90e3752dd73260ae021c5e5869b8d6b1acc0d0632' 'r-bioc-cner_1.42.0+dfsg-3_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 13 (Trixie) main arm64 revision trixie-main-arm64:753da751bbc7a679f48bd1b623ffd4479cb6861c426118284c76eb82909e4908

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 13 (Trixie) main amd64 revision trixie-main-amd64:3ab4e811cf4f3e5a335d382c58cc19d85f1abe7a4ef4689160ca1f637fa0e9b3, Debian 13 (Trixie) main arm64 revision trixie-main-arm64:753da751bbc7a679f48bd1b623ffd4479cb6861c426118284c76eb82909e4908. 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 13 (Trixie) main amd64Sep 1, 2026
Authoritative source; repository metadata signature verified, revision trixie-main-amd64:3ab4e811cf4f3e5a335d382c58cc19d85f1abe7a4ef4689160ca1f637fa0e9b3
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/trixie/InRelease
Signed-object SHA-256
98b25b5cd185c59d34aa6e4c3e9b5b8f01bbe9d104fe2dcfbcd30dc0a14a59ed
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: 3ab4e811cf4f3e5a335d382c58cc19d85f1abe7a4ef4689160ca1f637fa0e9b3
Observed SHA-256: 3ab4e811cf4f3e5a335d382c58cc19d85f1abe7a4ef4689160ca1f637fa0e9b3
Result: match verified
Debian 13 (Trixie) main arm64Sep 1, 2026
Authoritative source; repository metadata signature verified, revision trixie-main-arm64:753da751bbc7a679f48bd1b623ffd4479cb6861c426118284c76eb82909e4908
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/trixie/InRelease
Signed-object SHA-256
98b25b5cd185c59d34aa6e4c3e9b5b8f01bbe9d104fe2dcfbcd30dc0a14a59ed
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: 753da751bbc7a679f48bd1b623ffd4479cb6861c426118284c76eb82909e4908
Observed SHA-256: 753da751bbc7a679f48bd1b623ffd4479cb6861c426118284c76eb82909e4908
Result: match verified