{"id":20153555,"url":"https://github.com/seqan/raptor","last_synced_at":"2025-04-09T16:08:34.930Z","repository":{"id":37090025,"uuid":"294665991","full_name":"seqan/raptor","owner":"seqan","description":"A fast and space-efficient pre-filter for querying very large collections of nucleotide sequences.","archived":false,"fork":false,"pushed_at":"2025-04-07T04:27:03.000Z","size":4801,"stargazers_count":52,"open_issues_count":12,"forks_count":18,"subscribers_count":3,"default_branch":"main","last_synced_at":"2025-04-09T16:08:14.260Z","etag":null,"topics":["binning","bloom-filter","filter","k-mer","minimizer","set-membership","threshold"],"latest_commit_sha":null,"homepage":"https://docs.seqan.de/raptor","language":"C++","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":"other","status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/seqan.png","metadata":{"files":{"readme":"README.md","changelog":"CHANGELOG.md","contributing":null,"funding":null,"license":"LICENSE.md","code_of_conduct":"CODE_OF_CONDUCT.md","threat_model":null,"audit":null,"citation":null,"codeowners":null,"security":null,"support":null,"governance":null,"roadmap":null,"authors":null,"dei":null,"publiccode":null,"codemeta":null}},"created_at":"2020-09-11T10:34:33.000Z","updated_at":"2025-04-05T16:47:49.000Z","dependencies_parsed_at":"2023-02-16T21:00:40.417Z","dependency_job_id":"acf398c7-3638-40cb-8767-8c29943e0796","html_url":"https://github.com/seqan/raptor","commit_stats":null,"previous_names":[],"tags_count":6,"template":false,"template_full_name":"seqan/app-template","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/seqan%2Fraptor","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/seqan%2Fraptor/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/seqan%2Fraptor/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/seqan%2Fraptor/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/seqan","download_url":"https://codeload.github.com/seqan/raptor/tar.gz/refs/heads/main","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":248065285,"owners_count":21041871,"icon_url":"https://github.com/github.png","version":null,"created_at":"2022-05-30T11:31:42.601Z","updated_at":"2022-07-04T15:15:14.044Z","host_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories","repository_names_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repository_names","owners_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners"}},"keywords":["binning","bloom-filter","filter","k-mer","minimizer","set-membership","threshold"],"created_at":"2024-11-13T23:19:42.174Z","updated_at":"2025-04-09T16:08:34.912Z","avatar_url":"https://github.com/seqan.png","language":"C++","funding_links":[],"categories":[],"sub_categories":[],"readme":"\u003c!--\nSPDX-FileCopyrightText: 2006-2025, Knut Reinert \u0026 Freie Universität Berlin\nSPDX-FileCopyrightText: 2016-2025, Knut Reinert \u0026 MPI für molekulare Genetik\nSPDX-License-Identifier: CC-BY-4.0\n--\u003e\n\n# Raptor [![build status][1]][2] [![codecov][3]][4] [![install with bioconda][5]][6]\n\n[1]: https://img.shields.io/github/actions/workflow/status/seqan/raptor/ci_linux.yml?branch=main\u0026style=flat\u0026logo=github\u0026label=Raptor%20CI\n[2]: https://github.com/seqan/raptor/actions?query=branch%3Amain\n[3]: https://codecov.io/gh/seqan/raptor/branch/main/graph/badge.svg?token=SJVMYRUKW2\u0026flag=stable\n[4]: https://codecov.io/gh/seqan/raptor\n[5]: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat\n[6]: #install-with-bioconda-linux\n\n### A fast and space-efficient pre-filter for querying very large collections of nucleotide sequences\n\n## Download and Installation\nSee the [documentation](https://docs.seqan.de/raptor/main/setup.html) for detailed information on how to download,\ninstall, and compile Raptor.\n\nThere may be performance benefits when compiling from source, as Raptor can be optimized for the host system.\n\n### Install with [bioconda](https://bioconda.github.io/recipes/raptor/README.html) (Linux)\n\n```bash\nconda install -c bioconda -c conda-forge raptor\n```\n\n## Example Data and Usage\nSee the [documentation](https://docs.seqan.de/raptor/main/usage_quickstart.html) for usage.\n\n`raptor --help` will show available commands. Each command will have a respective help page that can be shown via, e.g.,\n`raptor build --help`.\n\n## Authorship and Copyright\nRaptor is being developed by [Enrico Seiler](mailto:enrico.seiler@fu-berlin.de), but also incorporates much work from\nother members of [SeqAn](https://www.seqan.de).\n\n### Citation\nIn your academic works (also comparisons and pipelines) please cite:\n  * *Raptor: A fast and space-efficient pre-filter for querying very large collections of nucleotide sequences*;\n    Enrico Seiler, Svenja Mehringer, Mitra Darvish, Etienne Turc, and Knut Reinert; iScience 2021 24 (7): 102782.\n    doi: https://doi.org/10.1016/j.isci.2021.102782\n  * *Hierarchical Interleaved Bloom Filter: enabling ultrafast, approximate sequence queries*;\n    Svenja Mehringer, Enrico Seiler, Felix Droop, Mitra Darvish, René Rahn, Martin Vingron, and Knut Reinert;\n    Genome Biol 24, 131 (2023). doi: https://doi.org/10.1186/s13059-023-02971-4\n\n### RECOMB 2021\nRaptor was presented at the [25th International Conference on Research in Computational Molecular Biology][recomb_url]:\n  * [Slides][recomb_slides]\n  * [Pre-recorded version of the talk][recomb_talk]\n\nPlease see the [License](#license) section for information on allowed use.\n\n[recomb_url]: https://www.recomb2021.org/\n[recomb_slides]: https://box.fu-berlin.de/s/TtM3Raxixm35Syy\n[recomb_talk]: https://box.fu-berlin.de/s/YJFQnwqdE5q2Tym\n\n### Supplementary\nThe subdirectory `util` contains applications and scripts related to papers.\n\n### License\nRaptor is open-source software. However, certain conditions apply when you (re-)distribute and/or modify Raptor,\nplease see the [license](https://github.com/seqan/raptor/blob/main/LICENSE.md).\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fseqan%2Fraptor","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fseqan%2Fraptor","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fseqan%2Fraptor/lists"}