{ "access": { "embargo": { "active": false, "reason": null }, "files": "public", "record": "public", "status": "open" }, "created": "2019-11-04T14:59:19.745457+00:00", "custom_fields": {}, "deletion_status": { "is_deleted": false, "status": "P" }, "files": { "count": 1, "enabled": true, "entries": { "ms609/TreeDist-0.0.0.9000.zip": { "access": { "hidden": false }, "checksum": "md5:90f4ebd5bd20a79aea8c6e4bb41c5b46", "ext": "zip", "id": "0028570e-f33b-4b18-a1ee-07ce90887dd2", "key": "ms609/TreeDist-0.0.0.9000.zip", "links": { "content": "https://zenodo.org/api/records/3528124/files/ms609/TreeDist-0.0.0.9000.zip/content", "self": "https://zenodo.org/api/records/3528124/files/ms609/TreeDist-0.0.0.9000.zip" }, "metadata": null, "mimetype": "application/zip", "size": 997034, "storage_class": "L" } }, "order": [], "total_bytes": 997034 }, "id": "3528124", "is_draft": false, "is_published": true, "links": { "access": "https://zenodo.org/api/records/3528124/access", "access_grants": "https://zenodo.org/api/records/3528124/access/grants", "access_links": "https://zenodo.org/api/records/3528124/access/links", "access_request": "https://zenodo.org/api/records/3528124/access/request", "access_users": "https://zenodo.org/api/records/3528124/access/users", "archive": "https://zenodo.org/api/records/3528124/files-archive", "archive_media": "https://zenodo.org/api/records/3528124/media-files-archive", "communities": "https://zenodo.org/api/records/3528124/communities", "communities-suggestions": "https://zenodo.org/api/records/3528124/communities-suggestions", "doi": "https://doi.org/10.5281/zenodo.3528124", "draft": "https://zenodo.org/api/records/3528124/draft", "file_modification": "https://zenodo.org/api/records/3528124/file-modification", "files": "https://zenodo.org/api/records/3528124/files", "latest": "https://zenodo.org/api/records/3528124/versions/latest", "latest_html": "https://zenodo.org/records/3528124/latest", "media_files": "https://zenodo.org/api/records/3528124/media-files", "parent": "https://zenodo.org/api/records/3528123", "parent_doi": "https://doi.org/10.5281/zenodo.3528123", "parent_doi_html": "https://zenodo.org/doi/10.5281/zenodo.3528123", "parent_html": "https://zenodo.org/records/3528123", "preview_html": "https://zenodo.org/records/3528124?preview=1", "quota_increase": "https://zenodo.org/api/records/3528124/quota-increase", "request_deletion": "https://zenodo.org/api/records/3528124/request-deletion", "requests": "https://zenodo.org/api/records/3528124/requests", "reserve_doi": "https://zenodo.org/api/records/3528124/draft/pids/doi", "self": "https://zenodo.org/api/records/3528124", "self_doi": "https://doi.org/10.5281/zenodo.3528124", "self_doi_html": "https://zenodo.org/doi/10.5281/zenodo.3528124", "self_html": "https://zenodo.org/records/3528124", "self_iiif_manifest": "https://zenodo.org/api/iiif/record:3528124/manifest", "self_iiif_sequence": "https://zenodo.org/api/iiif/record:3528124/sequence/default", "versions": "https://zenodo.org/api/records/3528124/versions" }, "media_files": { "count": 0, "enabled": false, "entries": {}, "order": [], "total_bytes": 0 }, "metadata": { "creators": [ { "affiliations": [ { "name": "Department of Earth Sciences, Durham University" } ], "person_or_org": { "family_name": "Martin R. Smith", "identifiers": [ { "identifier": "0000-0001-5660-1727", "scheme": "orcid" } ], "name": "Martin R. Smith", "type": "personal" } } ], "description": "

An R package that implements measures of tree similarity, including information-based generalized Robinson-Foulds distances (Phylogenetic Information Distance, Clustering Information Distance, Matching Split Information Distance; Smith, 2020) <doi:10.1093/bioinformatics/btaa614>; Jaccard-Robinson-Foulds distances (Bocker et al. 2013) <doi:10.1007/978-3-642-40453-5_13>, including the Nye et al. (2006) metric <doi:10.1093/bioinformatics/bti720>; the Matching Split Distance (Bogdanowicz & Giaro 2012)<doi:10.1109/TCBB.2011.48>; Maximum Agreement Subtree distances; the Kendall-Colijn (2016) distance <doi:10.1093/molbev/msw124>, and the Nearest Neighbour Interchange (NNI) distance, approximated per Li et al. (1996) <doi:10.1007/3-540-61332-3_168>. Calculates the median of a set of trees under any distance metric.

\n\n

Details and installation instructions are available at ms609.github.io/TreeDist.

", "languages": [ { "id": "eng", "title": { "en": "English" } } ], "publication_date": "2019-11-04", "publisher": "Zenodo", "related_identifiers": [ { "identifier": "https://github.com/ms609/TreeDist/tree/0.0.0.9000", "relation_type": { "id": "issupplementto", "title": { "de": "Erg\u00e4nzt", "en": "Is supplement to" } }, "scheme": "url" } ], "resource_type": { "id": "software", "title": { "de": "Software", "en": "Software" } }, "rights": [ { "description": { "en": "" }, "id": "gpl-2.0-only", "props": { "scheme": "spdx", "url": "https://www.gnu.org/licenses/old-licenses/gpl-2.0-standalone.html" }, "title": { "en": "GNU General Public License v2.0 only" } } ], "subjects": [ { "subject": "phylogenetics" }, { "subject": "tree distance" }, { "subject": "R" }, { "subject": "R packages" } ], "title": "TreeDist: Distances Between Phylogenetic Trees", "version": "v0.0.0.9000" }, "parent": { "access": { "owned_by": { "user": "37949" }, "settings": { "accept_conditions_text": null, "allow_guest_requests": false, "allow_user_requests": false, "secret_link_expiration": 0 } }, "communities": {}, "id": "3528123", "pids": { "doi": { "client": "datacite", "identifier": "10.5281/zenodo.3528123", "provider": "datacite" } } }, "pids": { "doi": { "client": "datacite", "identifier": "10.5281/zenodo.3528124", "provider": "datacite" }, "oai": { "identifier": "oai:zenodo.org:3528124", "provider": "oai" } }, "revision_id": 34, "stats": { "all_versions": { "data_volume": 249607585.0, "downloads": 427, "unique_downloads": 420, "unique_views": 3769, "views": 3924 }, "this_version": { "data_volume": 65804244.0, "downloads": 66, "unique_downloads": 65, "unique_views": 1384, "views": 1459 } }, "status": "published", "swh": {}, "updated": "2023-08-26T00:02:06.770028+00:00", "versions": { "index": 1, "is_latest": false } }