Nomer Corpus of Taxonomic Resources hash://sha256/df5b1b63af4c6e995eddfe6bf36b4ece5475574fd4e871ad1ec0a8b283091e08

This publication contains a Preston archive of resources used by Nomer, a biodiversity name and term translator.

This archive contains specific (repackaged) versions of:

NCBI Taxonomy [1,2], ITIS Taxonomy [3], GBIF Backbone Taxonomy [4,5], Index Fungorum [6], Plazi Treatment Bank [7] and the Catalogue of Life [8].

Please follow academic citation guidelines when using this corpus.

To clone this archive:

$ preston clone https://zenodo.org/record/6030038/files/

After cloning this archive, you should be able to reproduce results below without the --remote https://zenodo.org... part.

This publication has history:

$ preston history --remote https://zenodo.org/record/6030038/files/

<urn:uuid:0659a54f-b713-4f86-a917-5be166a14110> <http://purl.org/pav/hasVersion> <hash://sha256/bb6dac6461b66212c5b1826447d7765529ff5cbadeac1915f7c3be9748eda991> .
<hash://sha256/df5b1b63af4c6e995eddfe6bf36b4ece5475574fd4e871ad1ec0a8b283091e08> <http://purl.org/pav/previousVersion> <hash://sha256/bb6dac6461b66212c5b1826447d7765529ff5cbadeac1915f7c3be9748eda991> .

This publication contains versions for the following internet content aliases (aka URLs):

$ preston alias -l tsv --remote https://zenodo.org/record/6030038/files/ | cut -f1

https://download.catalogueoflife.org/col/latest_coldp.zip
https://ftp.ncbi.nlm.nih.gov/pub/pmc/PMC-ids.csv.gz
https://ftp.ncbi.nlm.nih.gov/pub/taxonomy/taxdump.tar.gz
https://github.com/globalbioticinteractions/globi-taxon-names/raw/main/non-taxon-words.txt
https://github.com/globalbioticinteractions/globi-taxon-names/raw/main/taxon-name-mapping.csv
https://github.com/plazi/treatments-rdf/archive/master.zip
https://uofi.box.com/shared/static/54l3b7h4q4pwqq4fgqvx42h3d328fl1c.csv
https://www.nodc.noaa.gov/cgi-bin/OAS/prd/download/50418.1.1.tar.gz
https://zenodo.org/record/3833105/files/synonym_links.gz
https://zenodo.org/record/3833105/files/taxonomic_units.gz
https://zenodo.org/record/3833105/files/taxon_unit_types.gz
https://zenodo.org/record/3834881/files/taxon.tab.gz
https://zenodo.org/record/5222044/files/gbif-backbone-by-id.tsv.gz
https://zenodo.org/record/5222044/files/gbif-backbone-by-name.tsv.gz
https://zenodo.org/record/5526782/files/taxonCache.tsv.gz
https://zenodo.org/record/5526782/files/taxonMap.tsv.gz
https://zenodo.org/record/5639794/files
https://zenodo.org/record/5719410/files/taxonCache.tsv.gz
https://zenodo.org/record/5719410/files/taxonMap.tsv.gz

For specific versions of content associated with the aliases:

$ preston alias --remote https://zenodo.org/record/6030038/files/
<https://ftp.ncbi.nlm.nih.gov/pub/taxonomy/taxdump.tar.gz> <http://purl.org/pav/hasVersion> <hash://sha256/30519c7daaf94dd0b5492718fc6a850bbef77bcbe9d715dec4482f4a710eb25e> <urn:uuid:618b9b48-cecc-497d-853f-1a0ffc679d2f> .
<https://github.com/globalbioticinteractions/globi-taxon-names/raw/main/non-taxon-words.txt> <http://purl.org/pav/hasVersion> <hash://sha256/6ededfa4a2498dbbb00df1055bb4220f7da52442710f36cd455eed80bce7fcb4> <urn:uuid:6498435a-98cb-4e8d-8db9-5dd5d85e6c3f> .
<https://github.com/globalbioticinteractions/globi-taxon-names/raw/main/taxon-name-mapping.csv> <http://purl.org/pav/hasVersion> <hash://sha256/312126dc5860ce405badaf78854540b13e43ee0c70239606708e84aeaa55e25c> <urn:uuid:1f871044-2937-406d-9099-1cdb9631dc02> .
<https://github.com/plazi/treatments-rdf/archive/master.zip> <http://purl.org/pav/hasVersion> <hash://sha256/da69931816b4639907b4aeb9b7799d9851a768fdfb4d53aa7ff37d3eedf2ae18> <urn:uuid:be8dc0e2-780b-4818-851b-0f0a1c68d3bd> .
<https://uofi.box.com/shared/static/54l3b7h4q4pwqq4fgqvx42h3d328fl1c.csv> <http://purl.org/pav/hasVersion> <hash://sha256/7c130289b2132b922760c1b7b5c4067e800bdfcc8b0d01cbb76034d40b9ad12f> <urn:uuid:45c10af2-023c-4aab-9210-8fdd62261e8a> .
<https://www.nodc.noaa.gov/cgi-bin/OAS/prd/download/50418.1.1.tar.gz> <http://purl.org/pav/hasVersion> <hash://sha256/6b44f811d89a828bc1dc6938c4ba6d181b7abdd4d8750be39b3cd6b096cdc849> <urn:uuid:e4519373-1363-4903-ac63-0d3a51ebc7c9> .
<https://zenodo.org/record/3833105/files/synonym_links.gz> <http://purl.org/pav/hasVersion> <hash://sha256/430e530a3bed7fb2b55e051e2f32c6a6bf667ab50b34d97d81c7dd46ff36b034> <urn:uuid:d3edc302-8531-46d6-98ac-852c5edc4c79> .
<https://zenodo.org/record/3833105/files/taxonomic_units.gz> <http://purl.org/pav/hasVersion> <hash://sha256/93be309767d800ef1234724e1c846ef94718fe57027b88f4acf26d271bb44337> <urn:uuid:37657f43-d0bc-4f5a-b669-20b2e402e517> .
<https://zenodo.org/record/3833105/files/taxon_unit_types.gz> <http://purl.org/pav/hasVersion> <hash://sha256/2c610601728671ae753e25205e485aa24595ee50a6ce108d6363e6f26e923f8f> <urn:uuid:31df2acd-ba7f-45b5-9d52-59b42d340136> .
<https://zenodo.org/record/3834881/files/taxon.tab.gz> <http://purl.org/pav/hasVersion> <hash://sha256/174611f436bf7de37bbfdb79af6420f186c2916cd927c72e68e1e8429be88c81> <urn:uuid:4302b4d3-81d0-430d-80b4-f22a53087b66> .
<https://zenodo.org/record/5222044/files/gbif-backbone-by-id.tsv.gz> <http://purl.org/pav/hasVersion> <hash://sha256/c434c7d3622421b17dadcd119391b32a66edee59f484d4cab924d92fd17713e2> <urn:uuid:82a50989-0bbb-41f2-904e-428a0a23122b> .
<https://zenodo.org/record/5222044/files/gbif-backbone-by-name.tsv.gz> <http://purl.org/pav/hasVersion> <hash://sha256/6e11ae9961a9498b60d4bdeb489d6c1f5da9c2732310edaecdc79bd287b79ef4> <urn:uuid:a0bdf9bc-ed81-4cf7-9cad-110434e3d07c> .
<https://zenodo.org/record/5526782/files/taxonCache.tsv.gz> <http://purl.org/pav/hasVersion> <hash://sha256/1e2b2a3f82e03a598be7abe3f65839a4c5fd7ce3ac607820b0c32faafc2dddd4> <urn:uuid:1ba5bc7d-d33c-44fa-a279-30fd81eaf776> .
<https://zenodo.org/record/5526782/files/taxonMap.tsv.gz> <http://purl.org/pav/hasVersion> <hash://sha256/a33a1f22f8334745d5fb174d368afc15c2b844b0b9ab2208df058efdb5cbe2b7> <urn:uuid:1b604c93-5838-42d9-b33a-5531438c529a> .
<https://download.catalogueoflife.org/col/latest_coldp.zip> <http://purl.org/pav/hasVersion> <hash://sha256/5a7731841c26a76e8c5da2f9b413f413c8cdfcabe7a57d9ac636bd2136ed64d8> <urn:uuid:24882095-69b4-4a0a-b9aa-492db73a787d> .
<https://ftp.ncbi.nlm.nih.gov/pub/pmc/PMC-ids.csv.gz> <http://purl.org/pav/hasVersion> <hash://sha256/99663c7a537e25364e1baf8f582a4595b09eecf73877a11a1fded6c047095d3d> <urn:uuid:4a58a31f-23d2-45cb-a521-c1bc23a5a290> .
<https://ftp.ncbi.nlm.nih.gov/pub/taxonomy/taxdump.tar.gz> <http://purl.org/pav/hasVersion> <hash://sha256/1d2f344bf613a8fb673f0859a571c02d7850ef12c485f25023dfb1176d8867a7> <urn:uuid:018709b5-ef5e-40b3-b9c3-1ec4df9c401f> .
<https://github.com/globalbioticinteractions/globi-taxon-names/raw/main/non-taxon-words.txt> <http://purl.org/pav/hasVersion> <hash://sha256/6ededfa4a2498dbbb00df1055bb4220f7da52442710f36cd455eed80bce7fcb4> <urn:uuid:3b6d9c57-758f-4c6e-8911-68e8052ed6ac> .
<https://github.com/globalbioticinteractions/globi-taxon-names/raw/main/taxon-name-mapping.csv> <http://purl.org/pav/hasVersion> <hash://sha256/ed1b8e299e8fe2ec1eb1da3b4041afdf1f3ba0d3716c6302633d644c4b6c9106> <urn:uuid:fbf1eeaf-670b-4144-bfdb-f440c1a23607> .
<https://github.com/plazi/treatments-rdf/archive/master.zip> <http://purl.org/pav/hasVersion> <hash://sha256/e70e660e996470c6256425f040eadc2b9a22ee60917a0b02054963e221beee2b> <urn:uuid:383789b1-0584-4614-a5e1-a4d8ba093993> .
<https://uofi.box.com/shared/static/54l3b7h4q4pwqq4fgqvx42h3d328fl1c.csv> <http://purl.org/pav/hasVersion> <hash://sha256/7c130289b2132b922760c1b7b5c4067e800bdfcc8b0d01cbb76034d40b9ad12f> <urn:uuid:0ec2a0af-a25a-4a89-972b-11bbfc1be9c6> .
<https://www.nodc.noaa.gov/cgi-bin/OAS/prd/download/50418.1.1.tar.gz> <http://purl.org/pav/hasVersion> <hash://sha256/34d240d369d83edea71cf07c1abe7e07849dc8d7dfa308231a89101c5bfd3db2> <urn:uuid:53acccda-e949-4053-9512-f9eeb4c3e613> .
<https://zenodo.org/record/3833105/files/synonym_links.gz> <http://purl.org/pav/hasVersion> <hash://sha256/430e530a3bed7fb2b55e051e2f32c6a6bf667ab50b34d97d81c7dd46ff36b034> <urn:uuid:8ef9ef86-ee75-4e49-bbbb-44476618c453> .
<https://zenodo.org/record/3833105/files/taxonomic_units.gz> <http://purl.org/pav/hasVersion> <hash://sha256/93be309767d800ef1234724e1c846ef94718fe57027b88f4acf26d271bb44337> <urn:uuid:fe220fca-c48c-4761-befa-f7a9bc7dc420> .
<https://zenodo.org/record/3833105/files/taxon_unit_types.gz> <http://purl.org/pav/hasVersion> <hash://sha256/2c610601728671ae753e25205e485aa24595ee50a6ce108d6363e6f26e923f8f> <urn:uuid:06a54a82-381d-4e3c-9937-c46d8c3cc83e> .
<https://zenodo.org/record/3834881/files/taxon.tab.gz> <http://purl.org/pav/hasVersion> <hash://sha256/174611f436bf7de37bbfdb79af6420f186c2916cd927c72e68e1e8429be88c81> <urn:uuid:7a064fda-70e7-40af-8e78-0861e0874f61> .
<https://zenodo.org/record/5222044/files/gbif-backbone-by-id.tsv.gz> <http://purl.org/pav/hasVersion> <hash://sha256/c434c7d3622421b17dadcd119391b32a66edee59f484d4cab924d92fd17713e2> <urn:uuid:d3692f49-3d53-4dc5-967d-39ffb3ae0f5b> .
<https://zenodo.org/record/5222044/files/gbif-backbone-by-name.tsv.gz> <http://purl.org/pav/hasVersion> <hash://sha256/6e11ae9961a9498b60d4bdeb489d6c1f5da9c2732310edaecdc79bd287b79ef4> <urn:uuid:4a797345-d0ee-4244-907a-562fbfb7369a> .
<https://zenodo.org/record/5639794/files> <http://purl.org/pav/hasVersion> <https://deeplinker.bio/.well-known/genid/34bbefe1-a7b8-386d-a67c-324574c9d6ca> <urn:uuid:4a6f18b1-60f5-4fcc-b559-9abe27cb7dba> .
<https://zenodo.org/record/5719410/files/taxonCache.tsv.gz> <http://purl.org/pav/hasVersion> <hash://sha256/41470aff9635ad209331a7b08079cb9cf03af2f4bc86a41f30d001a1979f061f> <urn:uuid:79e73089-1d69-4496-846e-0f77d670d614> .
<https://zenodo.org/record/5719410/files/taxonMap.tsv.gz> <http://purl.org/pav/hasVersion> <hash://sha256/9c3cde9e2e8bf90cd5f66d194bcea1462ecd3209a8d089f761c5a64cb5c35ed9> <urn:uuid:7ea55f67-2276-4750-b2cd-1bb50bb090fa> .

where the left side is the alias (or URL) and the right side contains the content id (or sha256 hash) of the associated content.

References

[1] Schoch CL, et al. NCBI Taxonomy: a comprehensive update on curation, resources and tools. Database (Oxford). 2020: baaa062. doi: 10.1093/database/baaa062

[2] Sayers EW, et al. GenBank. Nucleic Acids Res. 2019. 47(D1):D94-D99. doi: 10.1093/nar/gky989.

[3]  Integrated Taxonomic Information System (ITIS), www.itis.gov, doi: 10.5066/F7KH0KBK

[4] Simplified GBIF Backbone Taxonomy. Accessed at https://hosted-datasets.gbif.org/datasets/backbone/ on 2021-08-18.

[5] GBIF Secretariat (2021). GBIF Backbone Taxonomy. Checklist dataset https://doi.org/10.15468/39omei accessed via GBIF.org on 2021-08-18.

[6] Index Fungorum: Species Fungorum (2021). http://www.speciesfungorum.org

[7] Plazi Treatment Bank (2021). https://github.com/plazi/treatments-rdf/ http://plazi.org/ .

[8] Bánki, O., Roskov, Y., Döring, M., Ower, G., Vandepitte, L., Hobern, D., Remsen, D., Schalk, P., DeWalt, R. E., Keping, M., Miller, J., Orrell, T., Aalbu, R., Adlard, R., Adriaenssens, E., Aedo, C., Aescht, E., Akkari, N., Alonso-Zarazaga, M. A., et al. (2022). Catalogue of Life Checklist (Version 2022-01-14). Catalogue of Life. https://doi.org/10.48580/d4tp