Linux workstation

Debian 13 (Trixie) native package

discosnp

discovering Single Nucleotide Polymorphism from raw set(s) of reads

Packages / Debian 13 (Trixie) / science / discosnp

[Source: discosnp]

Package: discosnp (1:2.6.2-4+b2)

Maintainers:

Debian Med Packaging Team

External Resources:

Homepage: [colibread.inria.fr]

discovering Single Nucleotide Polymorphism from raw set(s) of reads

Other Packages Related to discosnp:

  • dep: [libc6] (>= 2.38)

    GNU C Library: Shared libraries

  • dep: [libgatbcore3] (>= 1.4.2)

    dynamic library of the Genome Analysis Toolbox

  • dep: [libgcc-s1] (>= 3.0)

    GCC support library

  • dep: [libhdf5-310] (>= 1.14.3)

    HDF5 C runtime files - serial version

  • dep: [libstdc++6] (>= 14)

    GNU Standard C++ Library v3

  • dep: [zlib1g] (>= 1:1.2.6)

    compression library - runtime

  • dep: [python3] [any]

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

  • dep: [python3]

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

  • dep: [gatb-core]

    Genome Analysis Toolbox with de-Bruijn graph

Download discosnp

ArchitecturePackage SizeInstalled SizeFiles
amd641.4 MiB2.8 MiB[list of files]
arm641.4 MiB3.0 MiB[list of files]

Шляхи файлів пакета (121)

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/bin/create_coverage_h5_file
  • /usr/bin/kissnp2
  • /usr/bin/kissreads2
  • /usr/bin/run_discoSnp++_ML.sh
  • /usr/bin/run_discoSnp++.sh
  • /usr/lib/discosnp/bin/quick_hierarchical_clustering
  • /usr/lib/discosnp/bin/read_file_names
  • /usr/share/discosnp/discoSnpRAD/clustering_scripts/discoRAD_clustering.sh
  • /usr/share/discosnp/discoSnpRAD/clustering_scripts/fasta_and_cluster_to_filtered_vcf.py
  • /usr/share/discosnp/discoSnpRAD/clustering_scripts/from_SRC_to_edges.py
  • /usr/share/discosnp/discoSnpRAD/clustering_scripts/README.md
  • /usr/share/discosnp/discoSnpRAD/COOKBOOK.md
  • /usr/share/discosnp/discoSnpRAD/post-processing_scripts/1SNP_per_cluster.py
  • /usr/share/discosnp/discoSnpRAD/post-processing_scripts/add_cluster_info_to_mapped_vcf.py
  • /usr/share/discosnp/discoSnpRAD/post-processing_scripts/filter_by_cluster_size_and_rank.py
  • /usr/share/discosnp/discoSnpRAD/post-processing_scripts/filter_paralogs.py
  • /usr/share/discosnp/discoSnpRAD/post-processing_scripts/filter_vcf_by_indiv_cov_max_missing_and_maf.py
  • /usr/share/discosnp/discoSnpRAD/post-processing_scripts/README.md
  • /usr/share/discosnp/discoSnpRAD/post-processing_scripts/vcf2structure.sh
  • /usr/share/discosnp/discoSnpRAD/README.md
  • /usr/share/discosnp/discoSnpRAD/run_discoSnpRad.sh
  • /usr/share/discosnp/scripts/ClassVCF_creator.py
  • /usr/share/discosnp/scripts/clusters_and_fasta_to_fasta.py_DEPRECATED
  • /usr/share/discosnp/scripts/create_filtered_vcf.py
  • /usr/share/discosnp/scripts/create_IGV_compatible_VCF.sh
  • /usr/share/discosnp/scripts/discoSnp++_to_csv.py
  • /usr/share/discosnp/scripts/filterOnBestDP_multiple_variant_at_same_pos.py
  • /usr/share/discosnp/scripts/filter_out_using_MAF.py
  • /usr/share/discosnp/scripts/filter_out_using_ratio_of_covered_files.py
  • /usr/share/discosnp/scripts/format_phased_for_clustering.py
  • /usr/share/discosnp/scripts/format_phased_for_K2000.py
  • /usr/share/discosnp/scripts/format_phased_variants_for_haplotyping.py
  • /usr/share/discosnp/scripts/from_path_to_edges.py
  • /usr/share/discosnp/scripts/from_phased_alleles_to_clusters.sh
  • /usr/share/discosnp/scripts/functionObjectVCF_creator.py
  • /usr/share/discosnp/scripts/k3000/compute_pi.py
  • /usr/share/discosnp/scripts/k3000/extract_DP_from_vcf.py
  • /usr/share/discosnp/scripts/k3000/From phased facts to gfa graph.pdf
  • /usr/share/discosnp/scripts/k3000/K3000_common.py
  • /usr/share/discosnp/scripts/k3000/K3000_enhance_gfa.py
  • /usr/share/discosnp/scripts/k3000/K3000_fact_haplotypes_to_localized_variant_ids.py
  • /usr/share/discosnp/scripts/k3000/K3000_facts_to_fa.py
  • /usr/share/discosnp/scripts/k3000/K3000_facts_to_gfa.py
  • /usr/share/discosnp/scripts/k3000/K3000_filter_badly_overlapping_variants.py
  • /usr/share/discosnp/scripts/k3000/K3000_find_unitig_connected_pairs_of_facts.py
  • /usr/share/discosnp/scripts/k3000/K3000_gfa_post_treatment.py
  • /usr/share/discosnp/scripts/k3000/K3000_gfa_to_dat.py
  • /usr/share/discosnp/scripts/k3000/K3000_gfa_to_fa.py
  • /usr/share/discosnp/scripts/k3000/K3000_msr_to_gfa.py
  • /usr/share/discosnp/scripts/k3000/K3000_node_ids_to_node_sequences.py
  • /usr/share/discosnp/scripts/k3000/K3000_paths_to_fa.py
  • /usr/share/discosnp/scripts/k3000/K3000_phased_paths_to_fa.py
  • /usr/share/discosnp/scripts/k3000/K3000.py
  • /usr/share/discosnp/scripts/k3000/K3000_working_zone_no_redundant_edges.py
  • /usr/share/discosnp/scripts/k3000/K3000_working_zone.py
  • /usr/share/discosnp/scripts/k3000/negative_binomial.py
  • /usr/share/discosnp/scripts/k3000/run_K3000.sh
  • /usr/share/discosnp/scripts/k3000/Snakefile
  • /usr/share/discosnp/scripts/k3000/sorted_list.py
  • /usr/share/discosnp/scripts/k3000/stats.py
  • /usr/share/discosnp/scripts/keep_extensions_disco_file.py
  • /usr/share/discosnp/scripts/phasing/phased_variants_to_graph_deprecated.py
  • /usr/share/discosnp/scripts/redundancy_removal_discosnp.py
  • /usr/share/discosnp/scripts/remove_extensions_disco_file.py
  • /usr/share/discosnp/scripts/remove_non_biallelic.py
  • /usr/share/discosnp/scripts/remove_non_covered_genotypes.py
  • /usr/share/discosnp/scripts/run_VCF_creator.sh
  • /usr/share/discosnp/scripts/simulations/ill100v4.bad.qual
  • /usr/share/discosnp/scripts/simulations/ill100v4.good.qual
  • /usr/share/discosnp/scripts/simulations/multiple_samples_simulator.sh
  • /usr/share/discosnp/scripts/simulations/random_mut_fasta.py
  • /usr/share/discosnp/scripts/simulations/README.md
  • /usr/share/discosnp/scripts/simulations/targeted_mut_fasta_corrected.py
  • /usr/share/discosnp/scripts/split_multiple_snps.py
  • /usr/share/discosnp/scripts/validation_scripts/compare_vcf_disco_pos_allele_only.py
  • /usr/share/discosnp/scripts/validation_scripts/eval_disco_one_snp_per_locus.py
  • /usr/share/discosnp/scripts/VCF_creator.py
  • /usr/share/discosnp/scripts/vcf_formatting_functions.py
  • /usr/share/discosnp/scripts/zero2one.py
  • /usr/share/doc/discosnp/changelog.Debian.amd64.gz
  • /usr/share/doc/discosnp/changelog.Debian.arm64.gz
  • /usr/share/doc/discosnp/changelog.Debian.gz
  • /usr/share/doc/discosnp/changelog.gz
  • /usr/share/doc/discosnp/copyright
  • /usr/share/doc/discosnp/discoSnp_user_guide.odt
  • /usr/share/doc/discosnp/discoSnp_user_guide.pdf.gz
  • /usr/share/doc/discosnp/discoSnp_user_guide.txt.gz
  • /usr/share/doc/discosnp/README.Debian
  • /usr/share/doc/discosnp/README.md.gz
  • /usr/share/doc/discosnp/README.test
  • /usr/share/doc/discosnp/run-unit-test
  • /usr/share/doc/discosnp/test/fof.txt
  • /usr/share/doc/discosnp/test/large_test/fof_rad_indel.txt
  • /usr/share/doc/discosnp/test/large_test/fof_rad.txt
  • /usr/share/doc/discosnp/test/large_test/generate_refs.sh
  • /usr/share/doc/discosnp/test/large_test/large_test.sh
  • /usr/share/doc/discosnp/test/large_test/local_large_test.sh.gz
  • /usr/share/doc/discosnp/test/large_test/rad_option_test/fof_rad.txt_radtest_k_31_c_auto_D_0_P_4_b_2_removemeplease
  • /usr/share/doc/discosnp/test/large_test/rad_option_test/loci_reads.gz
  • /usr/share/doc/discosnp/test/large_test/rad_option_test/loci_reads_one_indel.gz
  • /usr/share/doc/discosnp/test/large_test/rad_option_test/radref_k_31_c_auto_D_0_P_4_b_2_coherent.fa
  • /usr/share/doc/discosnp/test/reads_sequence1.fasta.gz
  • /usr/share/doc/discosnp/test/reads_sequence2.fasta.gz
  • /usr/share/doc/discosnp/test/ref_discoRes_k_31_c_3_D_100_P_1_b_0_coherent.fa.gz
  • /usr/share/doc/discosnp/test/ref_discoRes_k_31_c_3_D_100_P_1_b_0_coherent.vcf
  • /usr/share/doc/discosnp/test/ref_discoRes_k_31_c_3_D_100_P_3_b_0_coherent.fa.gz
  • /usr/share/doc/discosnp/test/ref_discoRes_k_31_c_3_D_100_P_3_b_0_coherent.vcf
  • /usr/share/doc/discosnp/test/ref_discoRes_k_31_c_auto_D_100_P_1_b_0_coherent.fa.gz
  • /usr/share/doc/discosnp/test/ref_discoRes_k_31_c_auto_D_100_P_1_b_0_coherent.vcf
  • /usr/share/doc/discosnp/test/reference_genome.fa
  • /usr/share/doc/discosnp/test/ref_version.txt
  • /usr/share/doc/discosnp/test/simple_test.sh
  • /usr/share/doc/discosnp/vcf_creator_user_guide.odt
  • /usr/share/doc/discosnp/vcf_creator_user_guide.pdf.gz
  • /usr/share/doc/discosnp/vcf_creator_user_guide.txt.gz
  • /usr/share/lintian/overrides/discosnp
  • /usr/share/man/man1/kissnp2.1.gz
  • /usr/share/man/man1/kissreads2.1.gz
  • /usr/share/man/man1/run_discoSnpRad.sh.1.gz
  • /usr/share/man/man1/run_discoSnp++.sh.1.gz
  • /usr/share/python3/runtime.d/discosnp.rtupdate

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

Використати цей пакет

OpenFactory може завантажити цю операційну систему у віртуальній машині браузера або почати збірку образу з рідною назвою пакета з цього запису.

Спробувати Debian 13 (Trixie) у браузеріЗібрати образ, що містить discosnp

Версії, набори та репозиторії

Кожен рядок: метадані індексу пакетів для однієї версії, архітектури, набору й репозиторію. Назви, URL і розміри зі джерела; посилання є змінним місцем отримання, не перерозповсюдженням OpenFactory.

VersionReleaseArchitectureRepositoryPackage sizeInstalled sizePublisher repository artifact
1:2.6.2-4+b2trixie / mainamd64Debian 13 · main · amd641.4 MiB2.8 MiBpool/main/d/discosnp/discosnp_2.6.2-4+b2_amd64.deb
1:2.6.2-4+b2trixie / mainarm64Debian 13 · main · arm641.4 MiB3.0 MiBpool/main/d/discosnp/discosnp_2.6.2-4+b2_arm64.deb

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

Контрольні суми й дати спостереження

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.

1:2.6.2-4+b2 / 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: 4f513362c0b82086a6d55115ed50f4dfe7fa801c6dec9a9596a2b80fcdd5cc87

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

printf '%s %s\n' '4f513362c0b82086a6d55115ed50f4dfe7fa801c6dec9a9596a2b80fcdd5cc87' 'discosnp_2.6.2-4+b2_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

1:2.6.2-4+b2 / 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: 6fcee9cb790656d7aaa1739569d4e16f0864a285ea9b6ec4519a59f2ad2c0e52

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

printf '%s %s\n' '6fcee9cb790656d7aaa1739569d4e16f0864a285ea9b6ec4519a59f2ad2c0e52' 'discosnp_2.6.2-4+b2_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

Повнота запису каталогу

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

Джерела та походження

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 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 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

discosnp Package for Debian 13 (Trixie) | OpenFactory