New on CRAN: hilldiv3 (3.0.0). View at https://CRAN.R-project.org/package=hilldiv3
hilldiv3: Integral Analysis of Diversity Based on Hill Numbers
Measures and compares the diversity of biological communities (e.g. tables of operational taxonomic units (OTUs), amplicon sequence variants (ASVs) or metagenome-assembled genomes (MAGs)) based on Hill numbers, in a unified framework for neutral, phylogenetic and functional diversity measurement, diversity partitioning, (dis)similarity measurement, diversity profiles, evenness and redundancy. The statistical framework encompasses richness, Shannon and Simpson diversity, Faith's phylogenetic diversity (PD), Rao's quadratic entropy and Sorensen- and UniFrac-type dissimilarities, all grounded in a single Hill-number framework. Methods are described in Jost (2007) <<a href="https://doi.org/10.1890%2F06-1736.1" target="_top">doi:10.1890/06-1736.1</a>>, Chao et al. (2010) <<a href="https://doi.org/10.1098%2Frstb.2010.0272" target="_top">doi:10.1098/rstb.2010.0272</a>>, Chiu et al. (2014) <<a href="https://doi.org/10.1890%2F12-0960.1" target="_top">doi:10.1890/12-0960.1</a>> and reviewed in Alberdi & Gilbert (2019) <<a href="https://doi.org/10.1111%2F1755-0998.13014" target="_top">doi:10.1111/1755-0998.13014</a>>. Optional import adapters interoperate with the Bioconductor packages 'phyloseq', 'SummarizedExperiment' and 'TreeSummarizedExperiment', which are available from <<a href="https://bioconductor.org" target="_top">https://bioconductor.org</a>>.
CRAN.R-project.org
October 6, 2026 at 9:27 PM
New on CRAN: hilldiv3 (3.0.0). View at https://CRAN.R-project.org/package=hilldiv3
New CRAN package hilldiv3 with initial version 3.0.0
#rstats
https://cran.r-project.org/package=hilldiv3
#rstats
https://cran.r-project.org/package=hilldiv3
CRAN: Package hilldiv3
Measures and compares the diversity of biological communities (e.g. tables of operational taxonomic units (OTUs), amplicon sequence variants (ASVs) or metagenome-assembled genomes (MAGs)) based on Hill numbers, in a unified framework for neutral, phylogenetic and functional diversity measurement, diversity partitioning, (dis)similarity measurement, diversity profiles, evenness and redundancy. The statistical framework encompasses richness, Shannon and Simpson diversity, Faith's phylogenetic diversity (PD), Rao's quadratic entropy and Sorensen- and UniFrac-type dissimilarities, all grounded in a single Hill-number framework. Methods are described in Jost (2007) <<a href="https://doi.org/10.1890%2F06-1736.1" target="_top">doi:10.1890/06-1736.1</a>>, Chao et al. (2010) <<a href="https://doi.org/10.1098%2Frstb.2010.0272" target="_top">doi:10.1098/rstb.2010.0272</a>>, Chiu et al. (2014) <<a href="https://doi.org/10.1890%2F12-0960.1" target="_top">doi:10.1890/12-0960.1</a>> and reviewed in Alberdi & Gilbert (2019) <<a href="https://doi.org/10.1111%2F1755-0998.13014" target="_top">doi:10.1111/1755-0998.13014</a>>. Optional import adapters interoperate with the Bioconductor packages 'phyloseq', 'SummarizedExperiment' and 'TreeSummarizedExperiment', which are available from <<a href="https://bioconductor.org" target="_top">https://bioconductor.org</a>>.
cran.r-project.org
October 6, 2026 at 5:02 PM
New CRAN package hilldiv3 with initial version 3.0.0
#rstats
https://cran.r-project.org/package=hilldiv3
#rstats
https://cran.r-project.org/package=hilldiv3
There are multiple optional constrained ontologies that improve performance, including a recommended bibliography file with reference data for the pdfs and DwC-A files with taxonomic data.
October 6, 2026 at 4:39 PM
There are multiple optional constrained ontologies that improve performance, including a recommended bibliography file with reference data for the pdfs and DwC-A files with taxonomic data.
I mean, if we're treating the matter seriously then no, thats a post-hoc attempt at cleaning up definitions that flies in the face of what myth and folklore about dragons actually exists -Dragon is a Vibe, not a taxonomic classification, and any attempt to make it the latter is doomed to fail
October 6, 2026 at 3:48 PM
I mean, if we're treating the matter seriously then no, thats a post-hoc attempt at cleaning up definitions that flies in the face of what myth and folklore about dragons actually exists -Dragon is a Vibe, not a taxonomic classification, and any attempt to make it the latter is doomed to fail
Taxonomic bias in ecology and evolution research: onlinelibrary.wiley.com/doi/full/10.... @ecol-evol.bsky.social
"Studies on vertebrates, relative to those on invertebrates, were more prevalent in higher impact journals and, within journals, received more citations and mentions in the media"
"Studies on vertebrates, relative to those on invertebrates, were more prevalent in higher impact journals and, within journals, received more citations and mentions in the media"
October 6, 2026 at 3:18 PM
Taxonomic bias in ecology and evolution research: onlinelibrary.wiley.com/doi/full/10.... @ecol-evol.bsky.social
"Studies on vertebrates, relative to those on invertebrates, were more prevalent in higher impact journals and, within journals, received more citations and mentions in the media"
"Studies on vertebrates, relative to those on invertebrates, were more prevalent in higher impact journals and, within journals, received more citations and mentions in the media"
Deep-sea Microbial Dataset of the Antarctic Ocean (dsMDAO): A high-resolution deep-sea microbial dataset of the Antarctic Ocean reveals potential for taxonomic and functional diversity www.microbiologyresearch.org/content/jour... #jcampubs 🌊
October 6, 2026 at 1:32 PM
Deep-sea Microbial Dataset of the Antarctic Ocean (dsMDAO): A high-resolution deep-sea microbial dataset of the Antarctic Ocean reveals potential for taxonomic and functional diversity www.microbiologyresearch.org/content/jour... #jcampubs 🌊
Taxonomic Bias Persists in Ecology and Evolution Research Despite Decades of Concern: onlinelibrary.wiley.com/doi/10.1002/...
October 6, 2026 at 12:48 PM
Taxonomic Bias Persists in Ecology and Evolution Research Despite Decades of Concern: onlinelibrary.wiley.com/doi/10.1002/...
Taxonomic revisions bring scattered knowledge together, clarify species identities & reveal overlooked diversity. Reliable identification is essential for mapping distributions, studying ecology and monitoring biodiversity.
→ doi.org/10.3897/evolsyst.10.210478
→ doi.org/10.3897/evolsyst.10.210478
October 6, 2026 at 12:13 PM
Taxonomic revisions bring scattered knowledge together, clarify species identities & reveal overlooked diversity. Reliable identification is essential for mapping distributions, studying ecology and monitoring biodiversity.
→ doi.org/10.3897/evolsyst.10.210478
→ doi.org/10.3897/evolsyst.10.210478
Ok, this one (from July 2026) isn't a republished article from the archives but a new one, a book review. Specifically it's on taxonomic vandalism, a subject closely connected to squamate studies and #herpetology... tetzoo.com/blog/2026/7/... #books #reptiles #bookreview
Snake Men by Zach St. George — Tetrapod Zoology
A fun, fast-paced new book covers taxonomic vandalism in the reptile world, and one notorious vandal in particular…
tetzoo.com
October 6, 2026 at 10:40 AM
Ok, this one (from July 2026) isn't a republished article from the archives but a new one, a book review. Specifically it's on taxonomic vandalism, a subject closely connected to squamate studies and #herpetology... tetzoo.com/blog/2026/7/... #books #reptiles #bookreview
In #EnvironmentalMicrobiome
Metagenomic insights into the taxonomic and metabolic diversity of the microbiome of Lake Karum in the Danakil Depression, Ethiopia
Read more ➡️ doi.org/10.1186/s40793-026-00938-z
Metagenomic insights into the taxonomic and metabolic diversity of the microbiome of Lake Karum in the Danakil Depression, Ethiopia
Read more ➡️ doi.org/10.1186/s40793-026-00938-z
October 6, 2026 at 10:05 AM
In #EnvironmentalMicrobiome
Metagenomic insights into the taxonomic and metabolic diversity of the microbiome of Lake Karum in the Danakil Depression, Ethiopia
Read more ➡️ doi.org/10.1186/s40793-026-00938-z
Metagenomic insights into the taxonomic and metabolic diversity of the microbiome of Lake Karum in the Danakil Depression, Ethiopia
Read more ➡️ doi.org/10.1186/s40793-026-00938-z
From Project Gutenberg:
Taxonomic Status of Some Mice of The Peromyscus boylii Group in Eastern Mexico, With Description of a New Subspecies
by Ticul Alvarez
Get it at: https://www.gutenberg.org/ebooks/33509
Taxonomic Status of Some Mice of The Peromyscus boylii Group in Eastern Mexico, With Description of a New Subspecies
by Ticul Alvarez
Get it at: https://www.gutenberg.org/ebooks/33509
October 5, 2026 at 6:15 PM
From Project Gutenberg:
Taxonomic Status of Some Mice of The Peromyscus boylii Group in Eastern Mexico, With Description of a New Subspecies
by Ticul Alvarez
Get it at: https://www.gutenberg.org/ebooks/33509
Taxonomic Status of Some Mice of The Peromyscus boylii Group in Eastern Mexico, With Description of a New Subspecies
by Ticul Alvarez
Get it at: https://www.gutenberg.org/ebooks/33509
Sauropod resilience in the southeastern Neuquén Basin at the end-Cretaceous: new titanosaurian evidence from the Allen Formation (late Maastrichtian) of Patagonia, Argentina www.tandfonline.com/doi/full/10....
Sauropod resilience in the southeastern Neuquén Basin at the end-Cretaceous: new titanosaurian evidence from the Allen Formation (late Maastrichtian) of Patagonia, Argentina
The Late Cretaceous sauropod fauna of Patagonia shows a high taxonomic diversity and a widespread distribution, including over a third of all known Gondwanan sauropod taxa. However, the Maastrichti...
www.tandfonline.com
October 5, 2026 at 1:33 PM
Sauropod resilience in the southeastern Neuquén Basin at the end-Cretaceous: new titanosaurian evidence from the Allen Formation (late Maastrichtian) of Patagonia, Argentina www.tandfonline.com/doi/full/10....
🚨New Preprint from our lab
We present the Ocean MicroBiomics Database - a comprehensive and easily accessible resource containing taxonomic, functional and distribution information on >31,000 microbial species
Preprint www.biorxiv.org/content/10.6...
Website omdb.microbiomics.io/repository/o...
We present the Ocean MicroBiomics Database - a comprehensive and easily accessible resource containing taxonomic, functional and distribution information on >31,000 microbial species
Preprint www.biorxiv.org/content/10.6...
Website omdb.microbiomics.io/repository/o...
The Ocean Microbiomics Database reveals thermal niches and projected pressure on marine microbes in a warming ocean
Temperature is a key driver of ocean microbial community structure, yet its role in shaping global distributions and their response to warming remains unclear due to fragmented studies, inconsistent m...
www.biorxiv.org
October 5, 2026 at 7:03 AM
🚨New Preprint from our lab
We present the Ocean MicroBiomics Database - a comprehensive and easily accessible resource containing taxonomic, functional and distribution information on >31,000 microbial species
Preprint www.biorxiv.org/content/10.6...
Website omdb.microbiomics.io/repository/o...
We present the Ocean MicroBiomics Database - a comprehensive and easily accessible resource containing taxonomic, functional and distribution information on >31,000 microbial species
Preprint www.biorxiv.org/content/10.6...
Website omdb.microbiomics.io/repository/o...
And when you give me that stupid look like, "did you just throw a shoe at my face?" I'm gonna throw the other one. Full fuckin Dubya.
You think you're clever. "Oopsiedoodle, by taxonomic classification, zionism falls under Bad!" Try to be clever about making the sons of bitches stop murdering us.
You think you're clever. "Oopsiedoodle, by taxonomic classification, zionism falls under Bad!" Try to be clever about making the sons of bitches stop murdering us.
October 5, 2026 at 5:43 AM
And when you give me that stupid look like, "did you just throw a shoe at my face?" I'm gonna throw the other one. Full fuckin Dubya.
You think you're clever. "Oopsiedoodle, by taxonomic classification, zionism falls under Bad!" Try to be clever about making the sons of bitches stop murdering us.
You think you're clever. "Oopsiedoodle, by taxonomic classification, zionism falls under Bad!" Try to be clever about making the sons of bitches stop murdering us.
A taxonomic debate!
October 5, 2026 at 4:21 AM
A taxonomic debate!
Jérémy Cours, Aleksi Lehikoinen, Daniel Burgas, Risto K Heikkinen, Merja Elo, Martijn Versluijs, Rémi Duflot: Energy and heterogeneity shape bird taxonomic and functional gamma-diversity patterns across landscapes in Finland https://hal.inrae.fr/hal-05774149v1 [sde.be]
October 5, 2026 at 3:00 AM
Jérémy Cours, Aleksi Lehikoinen, Daniel Burgas, Risto K Heikkinen, Merja Elo, Martijn Versluijs, Rémi Duflot: Energy and heterogeneity shape bird taxonomic and functional gamma-diversity patterns across landscapes in Finland https://hal.inrae.fr/hal-05774149v1 [sde.be]
Absolutely. it's giving me ideas for characters, more ocs for me to throw out there an theoretical the #Runtvn Someone who keeps something like taxonomic notes from countless studies, dissections/observatios over the years. Already got someone in mind who deals with the dead, so why not.
October 4, 2026 at 9:57 AM
Absolutely. it's giving me ideas for characters, more ocs for me to throw out there an theoretical the #Runtvn Someone who keeps something like taxonomic notes from countless studies, dissections/observatios over the years. Already got someone in mind who deals with the dead, so why not.
kind of funny seeing news outlets try to explain avian taxonomic splitting. ornithologists do this constantly you just didn’t care about the mongolian gull 😒
October 4, 2026 at 1:29 AM
kind of funny seeing news outlets try to explain avian taxonomic splitting. ornithologists do this constantly you just didn’t care about the mongolian gull 😒
I dunno, looks pretty on point to me! (Taxonomic revision says this 'dicynodon' is actually Diictodon.)
October 3, 2026 at 10:49 PM
I dunno, looks pretty on point to me! (Taxonomic revision says this 'dicynodon' is actually Diictodon.)
Frankly being able to determine species, let alone genus is not a easy regarding paleontology when skeletal remains are the most common material we can study. So bless the paleonerds doing the work to figure out any similarities or distinctions to do any taxonomic designation of any kind.
October 3, 2026 at 6:33 PM
Frankly being able to determine species, let alone genus is not a easy regarding paleontology when skeletal remains are the most common material we can study. So bless the paleonerds doing the work to figure out any similarities or distinctions to do any taxonomic designation of any kind.
So far, the site has yielded primarily teeth of amiid fish and turtle shell from juvenile Basilemys, and we’re hopeful that continued efforts will yield greater taxonomic diversity.
October 3, 2026 at 2:26 PM
So far, the site has yielded primarily teeth of amiid fish and turtle shell from juvenile Basilemys, and we’re hopeful that continued efforts will yield greater taxonomic diversity.
Taxonomic research reflects not only how many species there are, but also what policy pays attention to. That creates a risk: poorly studied taxa can remain invisible to policy, and therefore remain poorly studied.
doi.org/10.1371/jour....
#Taxonomy #Biodiversity #Policy #TaxonomicCapacity #TETTRIX
doi.org/10.1371/jour....
#Taxonomy #Biodiversity #Policy #TaxonomicCapacity #TETTRIX
October 3, 2026 at 6:23 AM
Taxonomic research reflects not only how many species there are, but also what policy pays attention to. That creates a risk: poorly studied taxa can remain invisible to policy, and therefore remain poorly studied.
doi.org/10.1371/jour....
#Taxonomy #Biodiversity #Policy #TaxonomicCapacity #TETTRIX
doi.org/10.1371/jour....
#Taxonomy #Biodiversity #Policy #TaxonomicCapacity #TETTRIX
メキシコの恐竜研究の100年。
タイトルのメインの部分を見ると、学史の話っぽい感じもしますが、実際は身体の一部しか保存されていない化石のデータの扱い方に関する話です。
phylogenetic estimator (pê) なる指標を導入して議論を進めています。
論文フリー
#とよけら論文紹介
www.frontiersin.org/journals/eco...
タイトルのメインの部分を見ると、学史の話っぽい感じもしますが、実際は身体の一部しか保存されていない化石のデータの扱い方に関する話です。
phylogenetic estimator (pê) なる指標を導入して議論を進めています。
論文フリー
#とよけら論文紹介
www.frontiersin.org/journals/eco...
Frontiers | A hundred years of dinosaur research in Mexico: skeletal completeness and phylogenetic information of the dinosaur fossil record in Mexico
The dinosaur fossil record from Mexico is sparsely documented since most of it is fragmentary remains with little taxonomic information and a lot of it conti...
www.frontiersin.org
October 3, 2026 at 2:05 AM
メキシコの恐竜研究の100年。
タイトルのメインの部分を見ると、学史の話っぽい感じもしますが、実際は身体の一部しか保存されていない化石のデータの扱い方に関する話です。
phylogenetic estimator (pê) なる指標を導入して議論を進めています。
論文フリー
#とよけら論文紹介
www.frontiersin.org/journals/eco...
タイトルのメインの部分を見ると、学史の話っぽい感じもしますが、実際は身体の一部しか保存されていない化石のデータの扱い方に関する話です。
phylogenetic estimator (pê) なる指標を導入して議論を進めています。
論文フリー
#とよけら論文紹介
www.frontiersin.org/journals/eco...
With binomial species labels (Genus species) or NCBI taxon IDs, BTV can automatically display colored ribbons corresponding to Linnaean taxonomic ranks, so you can see where major groups fall and get an idea of the topology at a glance.
3/7
3/7
October 3, 2026 at 1:12 AM
With binomial species labels (Genus species) or NCBI taxon IDs, BTV can automatically display colored ribbons corresponding to Linnaean taxonomic ranks, so you can see where major groups fall and get an idea of the topology at a glance.
3/7
3/7
Public COI barcode libraries for New World phlebotomine sand flies: taxonomic coverage, vector-identification reliability and systematic signal #ActaTropica
Public COI barcode libraries for New World phlebotomine sand flies: taxonomic coverage, vector-identification reliability and systematic signal
Publication date: Available online 29 September 2026
Source: Acta Tropica
Author(s): Richard Onalbi Hoyos Lopez, Rafael José Vivero-Gómez
dlvr.it
October 3, 2026 at 12:56 AM
Public COI barcode libraries for New World phlebotomine sand flies: taxonomic coverage, vector-identification reliability and systematic signal #ActaTropica