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TaxonWorks

@taxonworks.bsky.social
233 followers 62 following 74 posts

Describe life. TaxonWorks is #opensource software from the Species File Group (speciesfilegroup.org). taxonworks.org together.taxonworks.org #biodiversityinformatics #taxonomy, #species

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Towards a National Collection (TaNC) @nationalcollection.bsky.social · 28/09/2026
We are pleased to announce the launch of the Economic Impact of Collections Loss project, to be delivered by London Economics Ltd. This project aims to address the limited evidence about the economic consequences when collections, collections data or systems become unavailable. tinyurl.com/2fzd8fat
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GGBN @ggbnoutreach.bsky.social · 28/09/2026
CETAF is organising a webinar on how new genomic technologies are transforming the scientific potential of natural history collections. Talks will be given by Prof. Michael Hofreiter and Dr. Carola Greve. 18 November 2026 14-15.30h (CET) Do not forget to register!
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Torsten Dikow @tdikow.bsky.social · 25/09/2026
#TDWG2026 presenting (virtually) this morning (local time in Oslo) on tool for automated transcription of digitized insect specimen labels - using machine learning to extract, transcribe + itemize data into Darwin Core fields - we call it Labellum - slides at @figshare.com doi.org/10.25573/dat...
presentation slide for a talk at TDWG 2026 meetingpresentation slide for a talk at TDWG 2026 meetingpresentation slide for a talk at TDWG 2026 meetingpresentation slide for a talk at TDWG 2026 meeting
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tdwg.org @tdwg.org · 25/09/2026
We completed our mission! #TDWG2026 brought together the best minds in Biodiversity, Data Management, Digital Infrastructures and more Thanks #Oslo, 🇳🇴 and thanks to University of Oslo, Natural History Museum and GBIF.no for hosting us Next stop: #LivingData2027 at #Montreal, 🇨🇦 🔗 tdwg.link/2027
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Rod Page @rdmpage.bsky.social · 25/09/2026
Summary of user feedback on future interfaces for @biodivlibrary.bsky.social as part of workshop run at @tdwg.org #tdwg2026 forum.biodiversitylibrary.org/t/bhl-worksh...
forum.biodiversitylibrary.org
BHL Workshop at TDWG 2026 feedback
Yesterday @bhl_nicole and I ran a workshop on “future interfaces for BHL” at the TDWG 2026 in Oslo. The workshop was “hands on” with live demos of various tools that I’ve posted here, such as the BHL ...
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FlyBase @flybase.bsky.social · 18/09/2026
New in FB2026_03! We have launched a beta release of #JBrowse2. All the data tracks you know and love in JBrowse are included in JBrowse2. The older JBrowse will continue to be available on FlyBase.org.
FlyBase JBrowse 2, with the Gene: transcript view; DRSC RNAi amplicons; and RNAseq: Digestive system (FlyAtlas2) tracks opened.

A collapsed menu of all available tracks is visible on the right of the panel.
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deciphergenomics.bsky.social @deciphergenomics.bsky.social · 18/09/2026
Are you a skilled and highly motivated Bioinformatics Developer looking for a new opportunity? Join the DECIPHER team - gain knowledge of clinical genomics and improved web development skills while creating tools to facilitate genomic medicine. embl.wd103.myworkdayjobs.com/EMBL/job/Hin...
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Ken-ichi Ueda @kueda.net · 19/09/2026
Finally restored upstream and downstream visualization of waterways in underfoot.rocks, using the National Hydrography Database.
Screenshot of a map showing waterways in the East Bay region of California, highlighting segments upstream and downstream of a point on San Leandro Creek.
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TaxonWorks @taxonworks.bsky.social · 19/09/2026
Sometime tomorrow a big dataset, decades old, on some of the most economically important insects worldwide, will finish its migration to TaxonWorks, its curators are excited. Welcome ScaleNet, to your place beside the Universal Chalcidoidea Database, home of your mortal enemies. Fun shall be had.
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TaxonWorks @taxonworks.bsky.social · 19/09/2026
The Species File Group will have a big presence at #TDWG2026 in Oslo, should be a wonderful time. Should be lots of opprotunities for discussions and on-the spot demos if folks are interested. Track Debbie or Matt down!
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TaxonWorks @taxonworks.bsky.social · 16/09/2026
The Species File Group is happy to announce a new project, unifying smaller efforts that have been ongoing internally for the last decade plus. The Miscellaneous Insect Species File is available at misc.speciesfile.org. For all of you that love the fringe insects, this resource is for you!
misc.speciesfile.org
Miscellaneous Insecta Species File
Miscellaneous Insecta Species File is a comprehensive source of knowledge for the following extant insect groups: Archaeognatha (Microcoryphia), Coleorrhyncha, Embioptera, Notoptera (Grylloblattodea a...
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tdwg.org @tdwg.org · 16/09/2026
Please remember, this Monday, 21 September Ramona Walls will present “From biodiversity data to knowledge in the age of AI: Where do ontologies and standards fit?” at #TDWG2026 plenary 🔗 tdwg.link/keynote-ramona #AIReadyData #Biodiversity #keynote #plenary
Promotional graphic for TDWG2026 keynote featuring a headshot of Ramona Walls, event logo, and the talk title: "From biodiversity data to knowledge in the age of AI: Where do ontologies and standards fit?" 

Image: © Universitetets Aula. Visitnorway.com
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The Global Soil Biodiversity Initiative @thegsbi.bsky.social · 16/09/2026
We’re thrilled to relaunch the GSBI website! 🍄 Our new look includes an updated website, our new logo, and refreshed information about who we are, what we do, and where we’re headed. 🌎 www.globalsoilbiodiversity.org #SoilBiodiversity #LivingSoils #SoilScience
globalsoilbiodiversity.org
Global Soil Biodiversity Initiative
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Nicole Kearney @nicolekearney.bsky.social · 16/09/2026
I’m delighted that @biodivlibrary.bsky.social will have a strong presence at #TDWG2026 in Oslo next week. I’ll be speaking in the mini-keynote session and hosting both our dedicated BHL symposium and (with @rdmpage.bsky.social) a hands-on BHL workshop. Hope to see you there! 🧪 📖 🌱 🌏 🔗 @tdwg.org
An historic illustration of a person walking across a living bridge made of fig tree rootsAn historic illustration of a person walking across a living bridge made of fig tree roots
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Nature Reviews Genetics @natrevgenet.nature.com · 09/09/2026
ICYMI: New online! Species-dense genomics through natural history collections
dlvr.it
Species-dense genomics through natural history collections
Nature Reviews Genetics, Published online: 02 September 2026; doi:10.1038/s41576-026-01011-8Large-scale genome initiatives are transforming biodiversity genomics, but genomes remain taxonomically sparse and difficult to compare across species. Kapli and colleagues argue that natural history collections should play a central role in building species-dense genomic resources, creating the foundation needed for comparative and predictive biodiversity genomics.
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BF Francis Ouellette @bffo.bsky.social · 01/09/2026
From Greg Wilson in arXiv | Twelve Quick Tips for Managing IT Disasters in Small Research Software Teams | #Informatics #OpenScience #Research #IT #DisastersPlanning #NotYetAPLOSCBQT | 🖥️🧪🔥🔓 ⬇️ arxiv.org/abs/2608.27196
arxiv.org
Twelve Quick Tips for Managing IT Disasters in Small Research Software Teams
In 2025, the US government launched an unprecedented series of attacks on its own scientific research groups. A year later GitHub dropped below 90% availability for the first time, while wildfires in ...
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Pablo Castro Sánchez-Bermejo @castretis.bsky.social · 11/09/2026
In our new preprint we propose a way to measure and partition diversity by working directly on the distributions. If you wanna try this with your own data, we created functions for calculating diversity, partitioning it and visualizing distributions 📈 Check the functions: doi.org/10.5281/zeno...
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Open science lab for biodiversity @oscibio.inbo.be · 10/09/2026
📦 We just released a new version (1.0.0) of our R package {camtraptor}, which you can use to explore & visualize camera trap datasets. 📸🦌 This long-awaited release supports Camtrap DP v1.0 and offers a step-by-step exploration workflow with new functions. #rstats 👉 oscibio.inbo.be/blog/camtrap...
oscibio.inbo.be
camtraptor 1.0.0
We released a new version of our R package camtraptor.
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David Maddison @bembidion.bsky.social · 08/09/2026
The Tree of Life Web Project is back online! tolweb.org Thanks to Travis Wheeler (@wheelerlab.org), Danny Mandel, and Andrew Lenards, the original programmers for ToLWeb, for retooling the code to work on a modern OS! It is hard for me to believe it lives again.
tolweb.org
Tree of Life Web Project
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Earth BioGenome Project 🌍 @ebpgenome.bsky.social · 08/09/2026
🐝 More than 1 million insect species have been described. Millions more may still be out there. Now imagine trying to sequence them. 🧬 From tiny amounts of DNA to wildly different genomes, insects present some of biodiversity genomics’ biggest challenges. #EarthBioGenomeProject #Insects #Genomics
A collage of diverse insects arranged around the text, “Unlocking the Genomes of Earth’s Most Diverse Animals.” The insects include beetles, moths, butterflies, bees, ants, grasshoppers, stick insects, and other species, illustrating the extraordinary diversity of insects.World map surrounded by photographs of insects from different regions. Text reads, “More than 1 million insect species have been described. Millions more may remain undiscovered. And each represents a genome we have yet to explore.”
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Rob Waterhouse @rmwaterhouse.bsky.social · 06/09/2026
How can Digital Sequence Information (DSI) databases remain open, sustainable, and globally connected while supporting benefit-sharing from the use of DSI on genetic resources? www.nature.com/articles/s41...
nature.com
How can biological databases support the new UN mechanism for benefit-sharing from digital sequence information? - Scientific Data
Scientific Data - How can biological databases support the new UN mechanism for benefit-sharing from digital sequence information?
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William B. Ludt, PhD @planet-of-fishes.bsky.social · 31/08/2026
We're hiring a Curator of Marine Invertebrates either at the Assistant or Associate level. Please spread the word to anyone you know who might be interested. Applications due October 15th! workforcenow.adp.com/mascsr/defau...
workforcenow.adp.com
Recruitment
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Rod Page @rdmpage.bsky.social · 02/09/2026
Job at @nhm-london.bsky.social "We are seeking an experienced Data Scientist for a 12-month project to develop an AI-powered knowledge extraction and discovery platform for the Biodiversity Heritage Library @biodivlibrary.bsky.social ) jobs.nhm.ac.uk/Job/JobDetai...
jobs.nhm.ac.uk
Data Scientist - AI for BHL:South Kensington
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Casey Dunn @caseywdunn.bsky.social · 25/08/2026
My new book, Phylogenetic Biology, is now published. Available online for free at dunnlab.org/phylogenetic... . Physical copies can be purchased at shop.lightningsource.com/b/085?params... or your favorite bookstore.
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David Shorthouse @dshorthouse.bsky.social · 22/08/2026
Working on this today but am too easily distracted by maps and canoe routes. Assuming I can focus my energies, come join me and the iDigBio community next week as I take a look at what's happened in 6 years of running Bionomia off the side of my desk.
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Marianne Alleyne @cotesia.bsky.social · 15/08/2026
My Department at the University of Illinois at Urbana-Champaign invites applications from entomologists with research portfolios in which INSECT BIODIVERSITY LOSS is a key element (at the assistant professor level). illinois.csod.com/ux/ats/caree...
Picture of a green tree-lined quad at the University of Illinois Urbana Champaign, with Foellinger Hall in the background. Skies are often this blue.
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Galaxy Project @galaxyproject.bsky.social · 13/08/2026
The 2nd Galaxy Tool Development Workshop! Join us to learn how to build and publish your own tools for Galaxy; led by experienced Galaxy devs 📍 Dept of Comp Sci, Uni of Freiburg 📅 2026-10-07 🔗 galaxyproject.org/events/2026-10-07… #UseGalaxy #EOSC #EuroScienceGateway
galaxyproject.org
The 2nd Galaxy Tool Development Workshop - Now Open to the wider Community!
Join us in Freiburg to learn how to build, test, and publish your own tools for the Galaxy platform - hands-on, beginner-friendly, and led by experienced Galaxy developers
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Alliance of Genome Resources @alliancegenome.bsky.social · 12/08/2026
Looking for model organism resources to follow on Bluesky? Here's a starter pack for you! go.bsky.app/Npxsd7h
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🍁 Alex Smith 🍁 @alexsmithants.bsky.social · 10/08/2026
🧪 🪰 🐜🪲🐞🦗🐛🦋🪳🦟 We analysed 3.78 million DNA barcodes from 152,891 Costa Rican insect species. Our results reveal limited community overlap across ecosystems, suggesting unique species assemblages in each life zone. doi.org/10.1139/gen-... @gdfcf.bsky.social @rpuschen.bsky.social 🧵
collage of from top left going clockwise: microgastrine wasp with DNA barcode, Malaise trap at 1300 on Volcan Cacao, forest at 1500m on Volcan Cacao, three ACG volcanos, map of the predicted spatial distribution of insect diversity patterns across mainland Costa Rica. Each color represents one of the seven mainland distribution patterns delineated here. Central image of GDFCF associated people working on the paper. 
Collage of authors: Clockwise from top left: Jenny Phillips, Roberto Fernandez, Jose Ugalde, Alex Smith, Jose Fernandez Triana, Mike Sharkey, Dan Janzen, Winnie Hallwachs, Rob Puschendorf and Ronald Zuniga
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Rudolf Meier @rudolf-meier.bsky.social · 09/08/2026
Five years back in Berlin #4a: Finding the small and mighty Most species are <5 mm. But small ≠ unimportant: ants outweigh all wild birds + mammals and spiders eat as much prey as humans meat/fish: ~400–800 Mt per /lyear. Meet EntoSieve for size sorting onlinelibrary.wiley.com/doi/10.1111/...
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Earth BioGenome Project 🌍 @ebpgenome.bsky.social · 05/08/2026
🧬 How do we scale biodiversity genomics? In the latest issue of EBP Life, Dr Caroline Howard shares how the Tree of Life Programme is building the infrastructure needed to produce reference genomes at scale. 📖 tinyurl.com/EBPLife #EarthBioGenomeProject #BiodiversityGenomics #Genomics #TreeOfLife
Scientist Spotlight graphic featuring Dr Caroline Howard seated at her desk in an office at the Wellcome Sanger Institute, smiling toward the camera. Two computer monitors display laboratory workflow dashboards, with biodiversity illustrations on the wall behind her. Overlaid text reads: "How do we scale biodiversity genomics? 'We cannot do this manually.'" Dr Howard is identified as part of the Tree of Life programme at the Wellcome Sanger Institute.Dr Caroline Howard works at a laboratory bench while holding a labelled sample tube above a rack of orange-capped tubes. She wears a blue lab coat and gloves, with laboratory equipment and another researcher working in the background. Overlaid text reads: "At some point, you have to decide that 80% success is enough to move forward and scale." The words "move forward and scale" are highlighted in yellow.
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TaxonWorks @taxonworks.bsky.social · 05/08/2026
A big release today, 0.64.0, changelog is at github.com/SpeciesFileG...
github.com
Release Version 0.64.0 release · SpeciesFileGroup/taxonworks
Added Assigning OTU to taxon name task #130 ProjectOrganization model, link projects to org/depiction metadata #5027 Radial annotator: Add pagination to citations slice #4964 In the TaxonName verb...
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Entomological Collections Network @entcollnet.bsky.social · 01/08/2026
Do you work with insect collections? Yes?! Then we hope to see you at #ECN2026! 🪲 When: November Friday 6 - Saturday 7, 2026 Where: Columbus Hilton Downtown hotel, Ohio That’s right folks, we’re trialling something new and starting a day earlier than usual. We really hope you can join us!
A drawer of pinned carabid specimens from the NEON biorepository, with text overlayed in the centre with the ECN logo. Text reads: Entomolgical Collections Network annual meeting. November 6-7 2026. Columbus, Ohio, USA. Image taken by Isa Betancourt.
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Natural History Collections and Museomics @nhcm.pensoft.net · 03/08/2026
🏛️ In the following article, an opportunity for media-based storytelling to become a prominent application of natural history museum research is proposed, following a field-wide survey revealing that these stories are underrepresented on institutional social media: doi.org/10.3897/nhcm.3.176227
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Alex Wild @alexwild.bsky.social · 01/08/2026
I started using AI tools because an awful lot of people in academia are using it, my students will certainly be using it, and while I hate AI for so many reasons, I cannot in good conscience just dismiss the whole AI thing based on vibes. I need to know what it is doing, and how to use it.
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Carl T. Bergstrom @carlbergstrom.com · 21/07/2026
1. We—@eduede.bsky.social, @mjcrockett.bsky.social, Kevin Gross, and I—have a new preprint on the arXiv today, based on ideas that emerged during an @sfiscience.bsky.social workshop in November 2024: The unintended consequences of large language models as a labor-augmenting technology in science.
arxiv.org
The unintended consequences of large language models as a labor-augmenting technology in science
As a labor-augmenting technology, large language models (LLMs) have the potential to accelerate scientific activity across the research pipeline. But even if LLMs perform on par with human experts at ...
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Matt Bertone @bertonemyia.bsky.social · 30/07/2026
Be a dipterist. Be in Costa Rica for #FlySchool2026. See a muscoid #fly perching on a leaf. Tell student so they can collect it. Success!! Wait a minute 🤔 That's not a fly, but weevil mimicking one! This was so convincing, even rapidly moving & poking its wings out 🥰 #Curculionidae: cf. #Mnemynurus
A weevil with red around its neck, resembling the eyes of a fly. It has large brown eyes and a long yellow proboscis curving under the body. It's on a white background facing the viewer.A weevil with red around its neck, resembling the eyes of a fly. It has large brown eyes and a long yellow proboscis curving under the body. The wing cover are mottled brown and white. It is on a white background facing left.A weevil with red around its neck, resembling the eyes of a fly. It has large brown eyes and a long yellow proboscis curving under the body. The wing cover are mottled brown and white. It is on a white background facing away.A weevil with red around its neck, resembling the eyes of a fly. It has large brown eyes and a long yellow proboscis curving under the body. The wing cover are mottled brown and white, and the wings are sticking out the back. It is on a white background facing away from the viewer.
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Prosanta Chakrabarty @prosanta.bsky.social · 29/07/2026
From collections to conservation: the indispensable role of natural history museums The IUCN Species Survival Commission has published a Position Statement on the vital role of biological collections in biodiversity conservation iucn.org/news/202607/...
iucn.org
From collections to conservation: the indispensable role of natural history museums
The IUCN Species Survival Commission has published a Position Statement on the vital role of biological collections in biodiversity conservation: a formal acknowledgement that natural history museums,...
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Wayne Maddison @waynemaddison.bsky.social · 25/07/2026
A old-timer's concern about science as a chronic social medium, leading to the advice to spend time alone with nature and ideas. waynemaddison.wordpress.com/2026/07/25/s...
waynemaddison.wordpress.com
Science like no one is watching
I grew up largely unwatched. As children, David and I would go out and play unsupervised, free-range. We would go down to the ravine to explore nature. It was fun, but more than that, I think it wa…
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Dr Craig R McClain @drcraigmc.bsky.social · 24/07/2026
Thrilled to share our #NSF award is official: we're heading to the abyssal Pacific to map deep-sea biodiversity using eDNA and ROV push coring. 16 stations, 1,024 cores, one incredible cruise. Huge thanks to co-PI @hollybik.bsky.social for leading this. 🧪 #marinelife
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Digital Naturalism Laboratories @dinalab.bsky.social · 24/07/2026
At the big Moth event tonight at @amnh.org people were asking about the awesome art by @fievelw.bsky.social on display! Check out #YearoftheMoth for all the awesome art from the Moth Challenge!
Packed hall with cool moth art
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M. Brent Hawkins @homeobox.bsky.social · 23/07/2026
I am excited to open my lab at @ibioillinois.bsky.social in Spring 2027! We will use zebrafish & other fishy friends to reveal the genetic basis of large scale changes in the vertebrate body plan, and how this impacts both human health and evolution. Join me at UIUC! 🧬🧫🔬 www.hawkinslaboratory.com
A confocal image of a zebrafish embryo featured on the webpage for the Hawkins Lab at UIUC
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Rob Waterhouse @rmwaterhouse.bsky.social · 23/07/2026
Realising #FAIR’s promise requires sustained investment in the infrastructures that organise, standardise, and curate #data: deposition databases and knowledgebases. www.nature.com/articles/s41...
nature.com
The missing link in FAIR data policy: biodata resources in life sciences - Scientific Data
In the life sciences, FAIR principles have reshaped research policy, but their implementation still relies largely on individual researchers – many of whom lack the expertise or support needed to make...
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Emily Troyer @fishfetisher.bsky.social · 23/07/2026
accidental aRt
an R plot that looks like a clown threw up
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Jess Awad @parasitoidrex.bsky.social · 21/07/2026
It was a pleasure to work with @nathanjaybaker.bsky.social and @swarmofthoughts.bsky.social on this long-term insect time-series. The megadiversity of #DarkTaxa is a serious blind spot for #biodiversity monitoring - by focusing on well-known groups, we neglect the vast majority of species. 🧪🦟🪰
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Joint Genome Institute @jgi.doe.gov · 22/07/2026
Check out Genome Insider, the JGI’s podcast. Hear directly from users about how the JGI supports powering our future. Listen and follow on Apple, Spotify or wherever you find podcasts. 🖥️ 🧬 More: jointgeno.me/GenomeInsider
jointgeno.me
Genome Insider | Joint Genome Institute
Our podcast features JGI users discovering the expertise encoded in our environment.
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Centre for Biodiversity Genomics @cbg-uofg.bsky.social · 20/07/2026
Our DNA library is made possible thanks to the support of our funding partners. Learn more about our funding partner, Genome Canada: 🔗https://genomecanada.ca/
nserc-crsng.canada.ca
Canada.ca
The Natural Sciences and Engineering Research Council of Canada (NSERC), Canada's federal funding agency for university-based research and student training in natural sciences and engineering. It's…
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TaxonWorks @taxonworks.bsky.social · 22/07/2026
Some of us think TaxonWorks is pretty sweet, we might be biased. #3Dprint your own TW cookie cutter, model at www.thingiverse.com/thing:4536552. Cutter, and cookies, by #UI wiz José. As lore, our logo originated_from a collab between SFG and Pixo (pixotech.com), nearly a decade ago.
A kitchen tabletop.  Cookie dough rolled out with circular holes.  A 3-D printed cutter in the TaxonWorks logo style beside a perfectly cut cookie embossed with the logo.
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Jack Ashby @jackdashby.bsky.social · 20/07/2026
🚨 #MUSEUMJOBS KLAXON🚨 We're looking for a Senior Digitiser and two Digitisers to work across @zoologymuseum.bsky.social & @camplantsci.bsky.social to help create biodiversity data for the researchers who need it, through #DiSSCoUK. 1. www.cam.ac.uk/jobs/senior-... 2. www.cam.ac.uk/jobs/digitis...
A pinned moth is positioned within a light box, with a camera positioned aboveA museum drawer containing tens of pinned tiger and emerald moths lined up in rows
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tdwg.org @tdwg.org · 19/07/2026
Early bird 🦜discount 💵 for #TDWG2026 in #Oslo finishes in less than 48 hours on 21 July Hurry up 🏃🏾‍♀️ this is your last chance to secure discount tickets 🎟️! All presenting authors must be registered. More info: 🔗 tdwg.link/conf-registr...
Registration for TDWG 2026 Conference closes, in less than 48 hours, on 21 Jul 2026, 9:59am UTC-12

Image: Viewpoint SNØHETTA by Kristoffer Mæle Thuestad. Visitnorway.com
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