Package - discosnp
Primary informations
Download package: http://deb.debian.org/debian/pool/main/d/discosnp/discosnp_2.6.2-4+b2_amd64.deb (Size: 1.4MiB)| Property | Value |
|---|---|
| Package | discosnp |
| Source | discosnp (1:2.6.2-4) |
| Version | 1:2.6.2-4+b2 |
| Installed-Size | 2900 |
| Maintainer | Debian Med Packaging Team |
| Architecture | amd64 |
| Depends | libc6 (>= 2.38), libgatbcore3 (>= 1.4.2), libgcc-s1 (>= 3.0), libhdf5-310 (>= 1.14.3), libstdc++6 (>= 14), zlib1g (>= 1:1.2.6), python3:any, python3, gatb-core |
| Description | discovering Single Nucleotide Polymorphism from raw set(s) of reads |
| Description-md5 | b7d019a485b07265b1579844c0093c10 |
| Homepage | http://colibread.inria.fr/discosnp/ |
| Section | science |
| Priority | optional |
| Filename | pool/main/d/discosnp/discosnp_2.6.2-4+b2_amd64.deb |
| Size | 1457624 |
| MD5sum | ec59a06469e7d997176261bf5eb500ae |
| SHA256 | 4f513362c0b82086a6d55115ed50f4dfe7fa801c6dec9a9596a2b80fcdd5cc87 |
Files in package
- /usr/bin/create_coverage_h5_file
- /usr/bin/kissnp2
- /usr/bin/kissreads2
- /usr/bin/run_discoSnp++.sh
- /usr/bin/run_discoSnp++_ML.sh
- /usr/lib/discosnp/bin/quick_hierarchical_clustering
- /usr/lib/discosnp/bin/read_file_names
- /usr/share/discosnp/discoSnpRAD/COOKBOOK.md
- /usr/share/discosnp/discoSnpRAD/README.md
- /usr/share/discosnp/discoSnpRAD/clustering_scripts/README.md
- /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/post-processing_scripts/1SNP_per_cluster.py
- /usr/share/discosnp/discoSnpRAD/post-processing_scripts/README.md
- /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/vcf2structure.sh
- /usr/share/discosnp/discoSnpRAD/run_discoSnpRad.sh
- /usr/share/discosnp/scripts/ClassVCF_creator.py
- /usr/share/discosnp/scripts/VCF_creator.py
- /usr/share/discosnp/scripts/clusters_and_fasta_to_fasta.py_DEPRECATED
- /usr/share/discosnp/scripts/create_IGV_compatible_VCF.sh
- /usr/share/discosnp/scripts/create_filtered_vcf.py
- /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_K2000.py
- /usr/share/discosnp/scripts/format_phased_for_clustering.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/From
- /usr/share/discosnp/scripts/k3000/K3000.py
- /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_working_zone.py
- /usr/share/discosnp/scripts/k3000/K3000_working_zone_no_redundant_edges.py
- /usr/share/discosnp/scripts/k3000/Snakefile
- /usr/share/discosnp/scripts/k3000/compute_pi.py
- /usr/share/discosnp/scripts/k3000/extract_DP_from_vcf.py
- /usr/share/discosnp/scripts/k3000/negative_binomial.py
- /usr/share/discosnp/scripts/k3000/run_K3000.sh
- /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/README.md
- /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/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_formatting_functions.py
- /usr/share/discosnp/scripts/zero2one.py
- /usr/share/doc/discosnp/README.Debian
- /usr/share/doc/discosnp/README.md.gz
- /usr/share/doc/discosnp/README.test
- /usr/share/doc/discosnp/changelog.Debian.amd64.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/run-unit-test
- /usr/share/doc/discosnp/test/fof.txt
- /usr/share/doc/discosnp/test/large_test/fof_rad.txt
- /usr/share/doc/discosnp/test/large_test/fof_rad_indel.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/ref_version.txt
- /usr/share/doc/discosnp/test/reference_genome.fa
- /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_discoSnp++.sh.1.gz
- /usr/share/man/man1/run_discoSnpRad.sh.1.gz
- /usr/share/python3/runtime.d/discosnp.rtupdate