Packages / Debian 12 (Bookworm) / contrib/science / bcbio

Package: bcbio (1.2.9-2)

toolkit for analysing high-throughput sequencing data

Other Packages Related to bcbio:

  • dep: [python3] [any]

    interactive high-level object-oriented language (default python3 version)

  • dep: [python3-bcbio]

    library for analysing high-throughput sequencing data

  • rec: [bcftools]

    genomic variant calling and manipulation of VCF/BCF files

  • rec: [bwa]

    Burrows-Wheeler Aligner

  • rec: [cnvkit]

    Copy number variant detection from targeted DNA sequencing

  • rec: [cufflinks]

    Transcript assembly, differential expression and regulation for RNA-Seq

  • rec: [delly]

    Structural variant discovery by read analysis

  • rec: [fastqc]

    quality control for high throughput sequence data

  • rec: [freebayes]

    Bayesian haplotype-based polymorphism discovery and genotyping

  • rec: [grabix]

    wee tool for random access into BGZF files

  • rec: [libvcflib-tools]

    C++ library for parsing and manipulating VCF files (tools)

  • rec: [macs]

    Model-based Analysis of ChIP-Seq on short reads sequencers

  • rec: [pythonpy]

    'python -c', with tab completion and shorthand

  • rec: [rna-star]

    ultrafast universal RNA-seq aligner

  • rec: [hisat2]

    graph-based alignment of short nucleotide reads to many genomes

  • rec: [sambamba]

    tools for working with SAM/BAM data

  • rec: [samblaster]

    marks duplicates, extracts discordant/split reads

  • rec: [samtools]

    processing sequence alignments in SAM, BAM and CRAM formats

  • rec: [salmon]

    wicked-fast transcript quantification from RNA-seq data

  • rec: [stringtie]

    assemble short RNAseq reads to transcripts

  • rec: [subread]

    toolkit for processing next-gen sequencing data

  • rec: [tabix]

    generic indexer for TAB-delimited genome position files

  • rec: [umis]

    tools for processing UMI RNA-tag data

  • rec: [varscan]

    variant detection in next-generation sequencing data

  • rec: [wget]

    retrieves files from the web

  • rec: [wham-align]

    Wisconsin's High-Throughput Alignment Method

  • sug: [toil]

    cross-platform workflow engine

  • sug: [cwltool]

    Common Workflow Language reference implementation

  • sug: [kallisto]

    near-optimal RNA-Seq quantification

  • sug: bcbio-doc

    Package not available

  • sug: qualimap

    Package not available

  • sug: [libglu1-mesa]

    Mesa OpenGL utility library (GLU)

  • sug: tophat2

    Package not available

  • sug: [tophat-recondition]

    post-processor for TopHat unmapped reads

  • sug: [r-bioc-summarizedexperiment]

    BioConductor assay container

  • sug: [r-cran-tidyverse]

    Easily Install and Load the 'Tidyverse'

  • sug: [r-other-wasabi]

    prepare Sailfish and Salmon output for downstream analysis using GNU R

Download bcbio

ArchitecturePackage sizeInstalled sizeFilesPackage
all75 KiB285 KiBlist of filesDownload

Percorsi file del pacchetto (0)

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.

No package-associated file paths were observed for the displayed build metadata.

Field source: Debian 12 (Bookworm) contrib amd64 revision bookworm-contrib-amd64:0b0cd0be7afe97b48e1f593e40d471cc673c576408d5513b3eee0bae4b28e52f

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Versioni, suite e repository

Ogni riga è metadato dell'indice pacchetti per una versione, architettura, suite e repository. Nomi, URL e dimensioni arrivano dalla fonte; un link è un punto di recupero mutabile, non una redistribuzione OpenFactory.

VersionReleaseArchitectureRepositoryPackage sizeInstalled sizePublisher repository artifact
1.2.9-2bookworm / contriballDebian 12 · contrib · amd6475 KiB285 KiBpool/contrib/b/bcbio/bcbio_1.2.9-2_all.deb
1.2.9-2bookworm / contriballDebian 12 · contrib · arm6475 KiB285 KiBpool/contrib/b/bcbio/bcbio_1.2.9-2_all.deb

Field source: Debian 12 (Bookworm) contrib amd64 revision bookworm-contrib-amd64:0b0cd0be7afe97b48e1f593e40d471cc673c576408d5513b3eee0bae4b28e52f

Checksum e date di osservazione

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.

1.2.9-2 / allObserved 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: b9ba11eac0b246af0bf19720af2f000910c02974bb69f5dc106e7cee9f6c070c

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

printf '%s %s\n' 'b9ba11eac0b246af0bf19720af2f000910c02974bb69f5dc106e7cee9f6c070c' 'bcbio_1.2.9-2_all.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) contrib amd64 revision bookworm-contrib-amd64:0b0cd0be7afe97b48e1f593e40d471cc673c576408d5513b3eee0bae4b28e52f

1.2.9-2 / allObserved 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: b9ba11eac0b246af0bf19720af2f000910c02974bb69f5dc106e7cee9f6c070c

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

printf '%s %s\n' 'b9ba11eac0b246af0bf19720af2f000910c02974bb69f5dc106e7cee9f6c070c' 'bcbio_1.2.9-2_all.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) contrib arm64 revision bookworm-contrib-arm64:2c8d4d73c617dee3178b63085b037371183a44573c3c0dc929cdfd86e9555e95

Fonti e provenienza

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) contrib amd64Sep 1, 2026

    Authoritative source; repository metadata signature verified, revision bookworm-contrib-amd64:0b0cd0be7afe97b48e1f593e40d471cc673c576408d5513b3eee0bae4b28e52f

    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 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: contrib/binary-amd64/Packages.xz
    Expected SHA-256: 0b0cd0be7afe97b48e1f593e40d471cc673c576408d5513b3eee0bae4b28e52f
    Observed SHA-256: 0b0cd0be7afe97b48e1f593e40d471cc673c576408d5513b3eee0bae4b28e52f
    Result: match verified

  • Debian 12 (Bookworm) contrib arm64Sep 1, 2026

    Authoritative source; repository metadata signature verified, revision bookworm-contrib-arm64:2c8d4d73c617dee3178b63085b037371183a44573c3c0dc929cdfd86e9555e95

    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 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: contrib/binary-arm64/Packages.xz
    Expected SHA-256: 2c8d4d73c617dee3178b63085b037371183a44573c3c0dc929cdfd86e9555e95
    Observed SHA-256: 2c8d4d73c617dee3178b63085b037371183a44573c3c0dc929cdfd86e9555e95
    Result: match verified