René's URL Explorer Experiment


Title: Releases · pr2database/pr2database · GitHub

Open Graph Title: Releases · pr2database/pr2database

X Title: Releases · pr2database/pr2database

Description: Protist Ribosomal Reference database (PR2) - SSU rRNA gene database - Releases · pr2database/pr2database

Open Graph Description: Protist Ribosomal Reference database (PR2) - SSU rRNA gene database - pr2database/pr2database

X Description: Protist Ribosomal Reference database (PR2) - SSU rRNA gene database - pr2database/pr2database

Mail addresses
jdelcampo@rsmas.miami.edu
ramonm@icm.csic.es
vaulot@sb-roscoff.fr
johan.decelle@univ-grenoble-alpes.fr
vaulot@sb-roscoff.fr
chetan.gaonkar@gmail.com
bente.edvardsen@bio.uio.no

Opengraph URL: /pr2database/pr2database/releases

X: @github

direct link

Domain: patch-diff.githubusercontent.com

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vaulothttps://patch-diff.githubusercontent.com/vaulot
v5.1.1 https://patch-diff.githubusercontent.com/pr2database/pr2database/tree/v5.1.1
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Daniel Vaulothttps://pr2-database.org/authors/vaulot/
Rubén González-Miguénshttps://pr2-database.org/authors/gonzalez-miguens/
A novel taxonomic database for eukaryotic mitochondrial cytochrome oxidase subunit I gene (eKOI),https://doi.org/10.1093/database/baaf057
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vaulothttps://patch-diff.githubusercontent.com/vaulot
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PR2 version 5.1.0https://patch-diff.githubusercontent.com/pr2database/pr2database/releases/tag/v5.1.0.0
Daniel Vaulothttps://pr2-database.org/authors/vaulot/
Javier del Campohttps://pr2-database.org/authors/delcampo/
Nina Pohlhttps://pr2-database.org/authors/pohl/
Eric Salomakihttps://pr2-database.org/authors/salomaki/
Haifeng Guhttps://pr2-database.org/authors/gu/
Anthony Bonacoltahttps://pr2-database.org/authors/bonacolta/
Raphael Morardhttps://pr2-database.org/authors/morard/
Anders K. Krabberødhttps://pr2-database.org/authors/krabberod/
Javier Arañó Ansolahttps://pr2-database.org/authors/ansola/
Alexei Seliukhttps://pr2-database.org/authors/seliuk/
https://doi.org/10.5281/zenodo.15129782
https://www.marinespecies.org/hab/index.phphttps://www.marinespecies.org/hab/index.php
barrnaphttps://github.com/tseemann/barrnap
GBIF databasehttps://www.gbif.org
The Ribosomal Operon Database: A Full-Length rDNA Operon Database Derived From Genome Assemblieshttps://onlinelibrary.wiley.com/doi/full/10.1111/1755-0998.14031
https://github.com/krabberod/RODhttps://github.com/krabberod/ROD
Detailed changeshttps://pr2database.github.io/pr2database/versions/5.1/PR2-5.1-table-sequences-updated.html
barrnaphttps://github.com/tseemann/barrnap
https://www.marinespecies.org/hab/index.phphttps://www.marinespecies.org/hab/index.php
The Ribosomal Operon Database: A Full-Length rDNA Operon Database Derived From Genome Assemblieshttps://onlinelibrary.wiley.com/doi/full/10.1111/1755-0998.14031
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PR2 version 5.0.0https://patch-diff.githubusercontent.com/pr2database/pr2database/releases/tag/v5.0.0
Daniel Vaulothttps://pr2-database.org/authors/vaulot/
Javier del Campohttps://pr2-database.org/authors/delcampo/
Fabien Burkihttps://pr2-database.org/authors/burki/
Mahwash Jamyhttps://pr2-database.org/authors/jamy/
Laure Guillouhttps://pr2-database.org/authors/guillou/
Luciana Santoferrarahttps://pr2-database.org/authors/santoferrara/
Maximilian Ganserhttps://pr2-database.org/authors/ganser/
Luciana Santoferrarahttps://pr2-database.org/authors/santoferrara/
Andrea de Oliveira da Rocha Francohttps://pr2-database.org/authors/de-oliveira/
Kenneth Mertenshttps://pr2-database.org/authors/mertens/
Haifeng Guhttps://pr2-database.org/authors/gu/
Se Hyeon Janghttps://pr2-database.org/authors/se-heyon-jang/
Pavel Škaloudhttps://pr2-database.org/authors/skaloud/
Manon Dünnhttps://pr2-database.org/authors/dunn/
Megan Grosshttps://pr2-database.org/authors/gross/
Alexei Seliukhttps://pr2-database.org/authors/seliuk/
Miguel Sandinhttps://pr2-database.org/authors/sandin/
Sebastian Metzhttps://pr2-database.org/authors/metz/
Anna Maria Fiore-Donnohttps://pr2-database.org/authors/fiore-donno/
Richard Dorrellhttps://pr2-database.org/authors/dorrell/
https://doi.org/10.5281/zenodo.7805244
emuhttps://gitlab.com/treangenlab/emu
pr2_version_5.0.0_emu_db.tar.gzhttps://github.com/pr2database/pr2database/releases/download/v5.0.0/pr2_version_5.0.0_emu_db.tar.gz
Emuhttps://gitlab.com/treangenlab/emu
Changeshttps://pr2database.github.io/pr2database/versions/5.0/PR2-5.0.0-table-sequences-updated.html
herehttps://patch-diff.githubusercontent.com/pr2database/pr2database/blob/v5.0.0
https://doi.org/10.5281/zenodo.6327890https://doi.org/10.5281/zenodo.6327890
EukRibo databasehttps://pr2database.github.io/pr2database/articles/pr2_02B_eukribo.html
https://doi.org/10.1111/jeu.12972https://doi.org/10.1111/jeu.12972
Mixoplankton databasehttps://pr2database.github.io/pr2database/articles/pr2_05_mixoplankton.html
WoRMS databasehttps://www.marinespecies.org/index.php
https://zenodo.org/record/6896896https://zenodo.org/record/6896896
EukRibo databasehttps://pr2database.github.io/pr2database/articles/pr2_02B_eukribo.html
Mixoplankton databasehttps://pr2database.github.io/pr2database/articles/pr2_05_mixoplankton.html
List of scriptshttps://pr2database.github.io/pr2database/versions/5.0/index.html
https://doi.org/10.1016/j.tree.2019.08.008https://doi.org/10.1016/j.tree.2019.08.008
https://doi.org/10.1101/2022.11.03.515105https://doi.org/10.1101/2022.11.03.515105
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PR2 version 4.14.1https://patch-diff.githubusercontent.com/pr2database/pr2database/releases/tag/v4.14.1
https://app.pr2-database.orghttps://app.pr2-database.org
version 4.14.0https://github.com/pr2database/pr2database/releases/tag/v4.14.0
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PR2 version 4.14.0https://patch-diff.githubusercontent.com/pr2database/pr2database/releases/tag/v4.14.0
DECIPHER packagehttp://www2.decipher.codes/
List of sequences added or updatedhttps://pr2database.github.io/pr2database/versions/4.14/PR2-update-list.html
Daniel Vaulothttps://pr2-database.org/authors/vaulot/
Alex Schoenlehttps://pr2-database.org/authors/schonle/
Miguel Sandinhttps://pr2-database.org/authors/sandin/
Raphael Morardhttps://pr2-database.org/authors/morard/
Frédéric Mahéhttps://pr2-database.org/authors/mahe/
Anna Maria Fiore-Donnohttps://pr2-database.org/authors/fiore-donno/
Javier del Campo and EukRef teamhttps://pr2-database.org/authors/delcampo/
scripthttps://pr2database.github.io/pr2database/versions/4.14/PR2-update-Cafeteria.html
Process and scripts to build phylogenyhttps://pr2database.github.io/pr2database/versions/4.14/PR2_rads_pipeline.html
script to upload to PR2https://pr2database.github.io/pr2database/versions/4.14/PR2-update-Radiolaria-Miguel.html
script to upload to PR2https://pr2database.github.io/pr2database/versions/4.14/PR2-update-Foram-Morard.html
mothur sitehttps://mothur.org/wiki/silva_reference_files/
Scripthttps://pr2database.github.io/pr2database/versions/4.14/PR2-update-Genbank.html
Scripthttps://pr2database.github.io/pr2database/versions/4.14/PR2-update-wrong-orientation-Fred.html
https://doi.org/10.1016/j.ejop.2019.125665https://doi.org/10.1016/j.ejop.2019.125665
https://doi.org/10.3390/microorganisms7080240https://doi.org/10.3390/microorganisms7080240
https://doi.org/10.1111/jeu.12342https://doi.org/10.1111/jeu.12342
https://doi.org/10.1016/j.cub.2021.03.012https://doi.org/10.1016/j.cub.2021.03.012
doi:10.1111/jeu.12691https://onlinelibrary.wiley.com/doi/full/10.1111/jeu.12691
doi:10.1038/ismej.2017.12https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5437347/pdf/ismej201712a.pdf
doi:10.1007/s00709-018-1241-1https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6133090/
doi:10.1093/bioinformatics/btp348https://academic.oup.com/bioinformatics/article/25/15/1972/213148
doi:10.1016/j.protis.2011.10.002https://www.sciencedirect.com/science/article/abs/pii/S1434461011000988?via%3Dihub
doi:10.1093/molbev/msp259https://academic.oup.com/mbe/article/27/2/221/970247
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vaulothttps://patch-diff.githubusercontent.com/vaulot
v4.13.0 https://patch-diff.githubusercontent.com/pr2database/pr2database/tree/v4.13.0
7f57f11https://patch-diff.githubusercontent.com/pr2database/pr2database/commit/7f57f111e72e75419e26bbce4ddbed48ff5d78e0
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PR2 version 4.13.0https://patch-diff.githubusercontent.com/pr2database/pr2database/releases/tag/v4.13.0
List of sequences added or updatedhttps://pr2database.github.io/pr2database/versions/4.13/PR2-update-4.13.0-list.html
Daniel Vaulothttps://pr2-database.org/authors/vaulot/
Javier del Campohttps://pr2-database.org/authors/delcampo/
Laure Arsenieffhttps://pr2-database.org/authors/arsenieff/
Ana Maria Cabellohttps://pr2-database.org/authors/arsenieff/
script - Suessialeshttps://pr2database.github.io/pr2database/versions/4.13/PR2-update-4.13.0-A-Suessiales.html
script - Thalassiosiraleshttps://pr2database.github.io/pr2database/versions/4.13/PR2-update-4.13.0-B-Thalassiosirales.html
script - Chrysophyceaehttps://pr2database.github.io/pr2database/versions/4.13/PR2-update-4.13.0-D-Chrysophyceae.html
script - Cultureshttps://pr2database.github.io/pr2database/versions/4.13/PR2-update-4.13.0-C-RCC.html
Silva version 138https://www.arb-silva.de/documentation/release-138/
script https://pr2database.github.io/pr2database/versions/4.13/PR2-update-4.13.0-F-GenBank.html
Silva version 138https://www.arb-silva.de/documentation/release-138/
Silva version 138https://www.arb-silva.de/documentation/release-138/
Script for Silva additionhttps://pr2database.github.io/pr2database/versions/4.13/PR2-update-4.13.0-E-Silva
https://doi.org/10.1073/pnas.1614842114https://doi.org/10.1073/pnas.1614842114
https://doi.org/10.1016/j.cub.2018.07.008https://doi.org/10.1016/j.cub.2018.07.008
Silva version 138https://www.arb-silva.de/documentation/release-138/
DECIPHER R packagehttp://www2.decipher.codes/index.html
herehttp://www2.decipher.codes/Downloads.html
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vaulothttps://patch-diff.githubusercontent.com/vaulot
v4.12.0 https://patch-diff.githubusercontent.com/pr2database/pr2database/tree/v4.12.0
95271a9https://patch-diff.githubusercontent.com/pr2database/pr2database/commit/95271a92d1b59641b6f2f1516df6384c731ac504
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PR2 version 4.12.0https://patch-diff.githubusercontent.com/pr2database/pr2database/releases/tag/v4.12.0
Margaret Brisbinhttps://brisbinplankton.wordpress.com/
https://cran.r-project.org/web/packages/openssl/vignettes/crypto_hashing.htmlhttps://cran.r-project.org/web/packages/openssl/vignettes/crypto_hashing.html
PhytoRefhttp://phytoref.sb-roscoff.fr/
Margaret Brisbinhttps://maggimars.github.io/eukGeoBlast/eGB.html
http://www.geonames.org/export/geonames-search.htmlhttp://www.geonames.org/export/geonames-search.html
fuzzywuzzyhttps://github.com/seatgeek/fuzzywuzzy
PhytoREF: a reference database of the plastidial 16S rRNA gene of photosynthetic eukaryotes with curated taxonomyhttps://onlinelibrary.wiley.com/doi/abs/10.1111/1755-0998.12401
Annotated 18S and 28S rDNA reference sequences of taxa in the planktonic diatom family Chaetocerotaceaehttps://journals.plos.org/plosone/article?id=10.1371/journal.pone.0208929
A new framework for the study of apicomplexan diversity across environmentshttps://www.biorxiv.org/content/10.1101/494880v1
Plastid sequenceshttps://pr2database.github.io/pr2database/versions/4.12/PR2_update_4.12.0_A_16S_plastid.html
Chaetoceroshttps://pr2database.github.io/pr2database/versions/4.12/PR2_update_4.12.0_B_Chaetoceros.html
Apicomplexahttps://pr2database.github.io/pr2database/versions/4.12/PR2_update_4.12.0_C_Apicomplexa.html
Other updateshttps://pr2database.github.io/pr2database/versions/4.12/PR2_update_4.12.0_D_Misc.html
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https://github.com/vaulot/pr2_database/blob/master/img/pr2_logo_16_9.png
R Script - PR2 update 4.11 - Managementhttps://pr2database.github.io/pr2database/versions/4.11/PR2_update_4.11.0_Misc.html
Palmophyllophyceaehttp://www.algaebase.org/browse/taxonomy/detail/?taxonid=p46841dcb7a325b00
Lopes dos Santos et al. 2018http://www.nature.com/articles/s41598-017-12412-5
Tragin and Vaulot 2018https://www.biorxiv.org/content/early/2018/10/22/449298
R Script - PR2 update 4.11 - Chloropicophyceaehttps://pr2database.github.io/pr2database/versions/4.11/PR2_update_4.11.0_Chloropicophyceae.html
R Script - PR2 update 4.11 - Mamiellophyceaehttps://pr2database.github.io/pr2database/versions/4.11/PR2_update_4.11.0_Mamiellophyceae.html
Eukrefhttp://eukref.org/
Boscaro et al.http://doi.wiley.com/10.1111/1462-2920.14264
R Script - PR2 update 4.11 - Ciliophorahttps://pr2database.github.io/pr2database/versions/4.11/PR2_update_4.11.0_EukRef_Ciliates.html
Lopes dos Santos, A., Pollina, T., Gourvil, P., Corre, E., Marie, D., Garrido, J.L., Rodríguez, F. et al. 2017. Chloropicophyceae, a new class of picophytoplanktonic prasinophytes. Sci. Rep. 7:14019.http://www.nature.com/articles/s41598-017-12412-5
Tragin, M. & Vaulot, D. 2018. Novel diversity within marine Mamiellophyceae (Chlorophyta) unveiled by metabarcoding. bioRxiv.https://www.biorxiv.org/content/early/2018/10/22/449298
Boscaro, V., Santoferrara, L.F., Zhang, Q., Gentekaki, E., Syberg-Olsen, M.J., del Campo, J. & Keeling, P.J. 2018. EukRef-Ciliophora: A manually curated, phylogeny-based database of small subunit rRNA gene sequences of ciliates. Environ. Microbiol.http://doi.wiley.com/10.1111/1462-2920.14264
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