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IT Lead for Danish digitisation program being advertised
by Pip Brewer 22 Feb '23

22 Feb '23

Hello, We are now advertising for an IT Lead for DaSSCo! DaSSCo (Danish System of Scientific Collections) is a national program to digitise every natural history specimen in Denmark. It is the Danish node of DiSSCo. The IT Lead is a key position will work as part of a small (but growing) team to help develop the infrastructure needed for this ambitious program. If you would like to know more about the museum: https://snm.ku.dk/english/about_the_museum/ Details of the post are here: https://employment.ku.dk/all-vacancies/?show=158363 Deadline is 19th February 2023. Please pass on to colleagues, friends, share on social media etc. Best wishes, Pip Pip Brewer DaSSCo Project Leader University of Copenhagen Natural History Museum of Denmark Digital Collections København K pip.brewer(a)snm.ku.dk<mailto:pip.brewer@snm.ku.dk> [Logo for Københavns Universitet] How we protect personal data<https://informationssikkerhed.ku.dk/english/protection-of-information-priva…>

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Webinar Invitation: Biological Collections Action Center
by Nelson,Gil 06 Feb '23

06 Feb '23

You are invited to a series of webinars focused on Envisioning a Biological Collections Action Center as proposed in the recent NASEM report (see list of organizers below) and authorized by the CHIPS and Science Act passed by the U.S. Congress last summer. The webinars are scheduled for 7, 14, and 21 March 2023. See below for details. All webinars will be held from 1-2 p.m. Eastern. Webinars will be open to all and will be recorded. Recordings will be posted here following the event: https://www.idigbio.org/wiki/index.php/Envisioning_a_Biological_Collections…. Webinar 1: March 7, 2023 Visions of an Action Center from NASEM Report Authors: Pam Soltis (moderator), Andy Bentley, and Barbara Thiers Webinar 2: March 14, 2023 Visions of an Action Center from NASEM Report Authors: Pam Soltis (moderator), Joe Cook, Scott Edwards, Talia Karim, Shirley Pomponi Webinar 3: March 21, 2023 Responses to the NASEM report with presentations from the Interagency Working Group on Scientific Collections (IWGSC), AIBS, and BCoN Speakers include: Scott Miller, Kevin Hackett, and Diane DiEuliis (IWGSC), Jyotsna Pandey (AIBS), and Breda Zimkus (BCoN). Registration Webinars will be held via Zoom. Register here: https://ufl.zoom.us/webinar/register/WN_YYB5rbCOR3WKHxkYMQh3Ng#/registration Organizers: John Bates, Carol Butler, Matt Borths, Joe Cook, Libby Ellwood, Jillian Goodwin, David Jennings, Gil Nelson, Jyotsna Pandey, Emily Sessa, Pam Soltis, Breda Zimkus Gil Nelson, PhD Director, Integrated Digitized Biocollections (iDigBio) President, Natural Science Collections Alliance (NSCA) Florida Museum of Natural History University of Florida gnelson(a)floridamuseum.ufl.edu

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Registration Open: 7th Annual Digital Data Conference
by Nelson,Gil 01 Feb '23

01 Feb '23

[cid:d621e06a-8d4c-445e-a1c7-b0ad462beefc] iDigBio<https://nam10.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.idigb…>, the Natural Science Collections Alliance (NSCA)<https://nam10.safelinks.protection.outlook.com/?url=https%3A%2F%2Fnscallian…>, and Arizona State University (ASU) are delighted to announce the 2023 Digital Data in Biodiversity Research Conference, 5-7 June, with this edition of the conference offering both in-person and virtual participation. We are anticipating a return to interpersonal interaction as well as continuing the option for remote engagement. The overall theme for the 2023 conference will be Leveraging Digital Data for Conservation, Ecology, Systematics, and Novel Biodiversity Research. Registration is now open! Register via Eventbrite<https://nam10.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.event…>: https://www.eventbrite.com/e/505164048267<https://nam10.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.event…> Registration fees: In-person, Non-student Registration (including virtual participation): $100 In-person, Student Registration (including virtual participation): $50 Virtual Participation Only: *Optional * Optional virtual registration fees will support the digital format technology, the editing and publication of abstracts, and keeping the conference sustainable. Registration fees are optional for virtual participants but encouraged. When registering, those who wish not to make a financial contribution to the conference will have that option. Although registration is optional, your registration information, even if you opt out of the fee, will allow us to keep you updated about conference activities. Deadlines: Registration & Abstract submission opens on Eventbrite: February 1 Abstract submission deadline: April 26 Please watch for further announcements and program developments on the conference announcement page: https://www.idigbio.org/content/digital-data-2023-leveraging-digital-data-s…<https://nam10.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.idigb…> Accommodation & Travel: https://www.idigbio.org/content/digital-data-2023-logistics<https://nam10.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.idigb…> For further information or to ensure that you are on the conference email list, please contact Gil Nelson (gnelson(a)floridamuseum.ufl.edu) or Jill Goodwin (jgoodwin(a)floridamuseum.ufl.edu) at iDigBio. Jillian Goodwin iDigBio Conference Manager Florida Museum of Natural History 508-887-6043 www.idigbio.org

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Digitiser posts in Denmark
by Pip Brewer 05 Jan '23

05 Jan '23

Hello, We are advertising for two Digitiser posts based at the Natural History Museum of Denmark (part of the University of Copenhagen) for DaSSCo (the Danish node of DiSSCo, an initiative to digitize all natural history specimens in Denmark). Please see the link below. Senior Digitiser for the Danish System of Scientific Collections (DaSSCo) (2 posts): https://jobportal.ku.dk/alle-opslag/?show=158214 The position is available from 1 April 2023 to 31 August 2026. Application closing date: 3 February 2026. Please help us spread the word on these posts! Social media, potential candidates, existing students, mailing lists etc - your help would be greatly appreciated! Best wishes, Pip Pip Brewer DaSSCo Project Leader University of Copenhagen Natural History Museum of Denmark Digital Collections København K pip.brewer(a)snm.ku.dk<mailto:pip.brewer@snm.ku.dk> [Logo for Københavns Universitet] How we protect personal data<https://informationssikkerhed.ku.dk/english/protection-of-information-priva…>

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Special Collections Researcher post at Cambridge University Herbarium (CGE): deadline 3rd Jan 2023
by Lauren Gardiner 23 Dec '22

23 Dec '22

** With apologies for cross-posting to multiple lists ** Dear All, Another year, another fantastic job opportunity at Cambridge University Herbarium! [?][?][?] We are recruiting a Special Collections Researcher to focus on identifying & mobilising our Type collections in 2023! [?] [?] [?] [?][?] Thanks to the Isaac Newton Trust we have 12 months' funding to support this post in the first instance, and the application deadline is 3rd January 2023 [?] [?] You can find out more about the project here: https://www.plantsci.cam.ac.uk/news/new-funding-help-university-herbarium-i… More details and further particulars for the post: https://www.jobs.cam.ac.uk/job/38536/ Please do share this message with colleagues, students, and your networks, newsletters, and job boards! Wishing you all a wonderful festive season and a very Happy New Year, Lauren --- Dr Lauren M. Gardiner FLS (pronouns: she/her)| Curator of the Cambridge University Herbarium (CGE) and Academic Librarian for the Department of Plant Sciences | CB2 1LR | Email: herbarium(a)plantsci.cam.ac.uk<mailto:herbarium@plantsci.cam.ac.uk> | @CUHerb<https://eur03.safelinks.protection.outlook.com/?url=https%3A%2F%2Ftwitter.c…> | YouTube Channel<https://eur03.safelinks.protection.outlook.com/?url=http%3A%2F%2Fwww.youtub…> This email (together with any files transmitted with it) is intended only for the use of the individual(s) to whom it is addressed and must not be distributed without explicit consent. It may contain information which is confidential and/or legally privileged. If you have received this email in error, please notify the sender by return email (or telephone) and delete the original message. Unless expressly stated, opinions in this email are those of the individual sender, and not of the University of Cambridge. The sender has taken reasonable precautions to check for viruses but the recipient opens this message at their own risk.

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Imageomics Institute Postdoctoral Research Associate search
by Bart, Henry L 21 Dec '22

21 Dec '22

The Tulane University Biodiversity Research Institute (TUBRI) is searching for a Postdoctoral Research Associate to involve in exciting, biology-guided, machine-learning research for two-years. The position is supported by a NSF Harnessing the Data Revolution Institute project entitled, Imageomics: A New Frontier of Biological Information Powered by Knowledge-Guided Machine Learning. This collaborative, multi-institution, multi-investigator project involves biologists and computer scientists who are training machine-learning algorithms to extract phenotypic trait data from images of a variety of types of biological specimens. The learning is aided by structured biological knowledge such as an anatomy ontology and phylogenetic trees. The postdoctoral researcher will contribute to ongoing efforts to extract trait data from images of fish specimens at the under the mentorship of Henry L. Bart Jr, Professor of Ecology and Evolutionary Biology and TUBRI Director, and Yasin Bakış, Senior Manager of Biodiversity Informatics and Data Engineering at TUBRI. The TUBRI postdoc will have opportunities to interact with other biologists, computer scientists, postdocs, and students from the ten other universities and research centers involved in the Imageomics Institute. TUBRI is a research center of Tulane's School of Science and Engineering, located on the grounds of the F. Edward Hebert Research Center in Belle Chasse, Louisiana, a suburb of New Orleans. TUBRI houses the Royal D. Suttkus Fish Collection and specializes in biodiversity discovery (primarily involving fishes) and biodiversity informatics research. The postdoctoral research associate will contribute to all aspects of ongoing work on the Imageomics Institute project at TUBRI, including: 1. Processing images of fish specimens and their supporting metadata to prepare them for machine-learning experiments; 2. Extracting data on morphological traits of fish specimens in images and determining the utility of the extracted data for identifying fish species and quantifying differences in traits of fish specimens from different populations within species; 3. Using extracted morphological traits data in "morphological barcoding" experiments focused on distinguishing images of fish specimens representing various fish taxonomic groups; 4. Verifying data and project output quality and accuracy; 5. Supporting the TUBRI coding team by a. assisting with software design where biological expertise is needed, b. making sure the software is properly documented, c. providing input during the coding process so that outputs are scientifically sound and publishable; 6. Attending project-related workshops, training programs, and meetings; 7. Keeping abreast of the latest literature relevant to the project; 8. Openly sharing findings with project collaborators; 9. Work collaboratively with Imageomics ML experts to explore develop new deep-learning methods; 10.Present analysis results at conferences and publish findings in scientific journals. Required Knowledge, Skills, and Abilities Prior (proven) experience in at least one of the following: Image Analysis, Artificial Intelligence, Genetic Algorithms, Biodiversity Informatics, Computational Biology, Bioinformatics, Biomedical Informatics, Ecoinformatics or a related field (scientific publications) Working knowledge of at least three of the following languages (one from each group) {Java, C, C++, C#}, {Python, PHP, Perl}, {R, Bash, JavaScript}, {ORACLE SQL, MSSQL, PostgreSQL, MySQL} Working knowledge of Unix based operating systems Experience in writing grant proposals and scientific publications Strong problem-solving skills Required Education and/or Experience PhD in Biological Sciences, Biodiversity Informatics, Computer Science, Information Sciences, Computational Biology/Bioinformatics, or a related field Preferred Qualifications Experience with: Image Processing Artificial Intelligence/Neural Networks Genetic Algorithms Web-database applications Experience in parallel computing (GPU) Working knowledge of version control system (GIT) Other Considerations The position is open to international candidates The postdoc is expected to travel internationally The postdoc should have strong communication and interpersonal skills Start date: As soon as an acceptable candidate is identified For additional information about the position, including application instructions, please contact Henry Bart (hbartjr(a)tulane.edu) or Yasin Bakiş (ybakis(a)tulane.edu) Henry L. Bart Jr., Ph.D. Director, Tulane University Biodiversity Research Institute Curator, Royal D. Suttkus Fish Collection 3705 Main Street, Belle Chasse, LA 70037 Voice: 504-394-1711; Fax: 504-394-5045 Professor of Ecology and Evolutionary Biology, Tulane University 400 Lindy Boggs Hall, New Orleans, LA 70118 Voice: 504-862-8283; Fax 504-862-8706 Website: http://people.tubri.org/hank/

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Imageomics Institute Graduate Research Assistant search
by Bart, Henry L 21 Dec '22

21 Dec '22

The Tulane University Biodiversity Research Institute (TUBRI) is searching for a Graduate Research Assistant (GRA) to involve in an exciting, research project entitled, Imageomics: A New Frontier of Biological Information Powered by Knowledge-Guided Machine Learning. TUBRI is a research center of Tulane's School of Science and Engineering, located on the grounds of the F. Edward Hebert Research Center in Belle Chasse, Louisiana, a suburb of New Orleans. TUBRI houses the Royal D. Suttkus Fish Collection and specializes in biodiversity discovery (primarily involving fishes) and biodiversity informatics research. The Imageomics Institute is collaborative, multi-institution, multi-investigator project involving biologists and computer scientists who are training machine-learning algorithms to extract phenotypic trait data from images of a variety of types of biological specimens. The learning is aided by structured biological knowledge such as an anatomy ontology and phylogenetic trees. The GRA will contribute to ongoing efforts at TUBRI to train computer algorithms to extract trait data from images of fish specimens. Interested persons must apply for admission to the Ph.D. program in Tulane's Department of Ecology and Evolutionary Biology (EEB) where they will develop and complete and original dissertation research project under the mentorship of Dr. Henry L. Bart Jr, Professor of Ecology and Evolutionary Biology and TUBRI Director, and Dr. Yasin Bakış, Senior Manager of Biodiversity Informatics and Data Engineering at TUBRI. The GRA position is funded for three years, but support guaranteed for up to 2-3 additional years of graduate study for completion of the Ph.D. degree. The GRA will also have opportunities to interact with other biologists, computer scientists, postdocs, and students from 10 other universities and research centers involved in the Imageomics Institute. Desired Knowledge, Skills, and Abilities Working knowledge of at least 2 of the following languages (one from each group) {Java, C, C++, C#}, {Python, PHP, Perl}, {R, Bash, JavaScript}, {ORACLE SQL, MSSQL, PostgreSQL, MySQL} Required Education and/or Experience BSc in Biology, Computer Science, Information Sciences, or a related field Should commit to complete PhD study in Ecology and Evolutionary Biology (EEB) or Interdisciplinary EEB and Computer Science Preferred Qualifications MSc in Biology, Computer Science, Information Sciences or a related field Working knowledge of Unix based operating systems Prior experience in one of the following fields: Image Processing, Artificial Intelligence, Genetic Algorithms, Biodiversity Informatics, Computational Biology, Bioinformatics, Biomedical Informatics, Ecoinformatics or a related field (publications) experience in Image Processing projects experience in Artificial Intelligence/Neural Networks projects experience in web-database applications experience in Genetic Algorithms Other requirement for the position Admission the Ph.D. program in Ecology and Evolutionary Biology at Tulane University The position is open to international candidates Should be able to travel internationally Strong communication and interpersonal skills Preferred Start Date: Fall 2023. Please use this link to apply for admission to the EEB Ph.D. program: https://applygrad.tulane.edu/apply/ For additional information or questions about the position please contact Henry Bart (hbartjr(a)tulane.edu) Henry L. Bart Jr., Ph.D. Director, Tulane University Biodiversity Research Institute Curator, Royal D. Suttkus Fish Collection 3705 Main Street, Belle Chasse, LA 70037 Voice: 504-394-1711; Fax: 504-394-5045 Professor of Ecology and Evolutionary Biology, Tulane University 400 Lindy Boggs Hall, New Orleans, LA 70118 Voice: 504-862-8283; Fax 504-862-8706 Website: http://people.tubri.org/hank/

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BioDigiCon: Final Update
by Nelson,Gil 15 Sep '22

15 Sep '22

BioDigiCon: Final Update Plans for the Biodiversity Digitization Conference (BioDigiCon 2022) are nearly complete. You can explore the agenda and other conference-related information on the conference wiki page here: https://www.idigbio.org/wiki/index.php/BioDigiCon_2022 and the presentation abstracts here: https://docs.google.com/document/d/1Qooo7bKfTC8mGXAct2xhjrhg1nWZFHPrtJBJ_n6…. Registration is free! Please register via Eventbrite: https://www.eventbrite.com/e/2022-biodigicon-tickets-367104919697 There is an excellent line-up of discussion sessions and workshops, including: BiotaPhy Webinar 2: Resolving Nomenclature: Making Appropriate Taxonomic Choices Maria Beatriz de Souza Cortez, University of Florida BioDigiCon is pleased to provide the platform for the second in a series of 10 webinars sponsored by BiotaPhy<https://www.idigbio.org/content/biotaphy-2022-webinar-series>, a set of computational workflows with broad impact on data-intensive research spanning ecology, phylogenetics, systematics, and conservation biology. Data quality: most common data dealbreakers Cat Chapman, iDigBio; Margot Schneider, Atlas of Living Australia; Dora Canhos, CRIA; Andrea Hahn, GBIF; Elspeth Haston, RBGE Digital Extended Specimen Discussion Session Libby Ellwood, iDigBio; Katja Seltmann, Cheadle Center for Biodiversity and Ecological Restoration, UC Santa Barbara; Julie Allen, University of Nevada, Reno; Katie Pearson and Ed Gilbert, Symbiota Support Hub Digitization Coordination: Combining Project Management & Digitization Efforts to Benefit Collections, Big and Small Jackie Chapman, Smithsonian Libraries and Archives; Frederik Berger, MfN Berlin; Helen Hardy, NHM London; Sylvia Orli, NMNH Smithsonian; Mareike Petersen, MfN Berlin; Kira Sobers, Smithsonian Libraries and Archives; Alyson Wilkins, NHMU Utah Digitization Workflows in Symbiota-based Biodiversity Specimen Data Portals Katie Pearson, Symbiota Support Hub, Arizona State University; Lindsay Walker, Symbiota, ASU GBIF, ALA, iDigBio: Aligning systems to benefit data mobilization Federico Mendez (GBIF), Javier Molina (ALA), Maureen Kelly (iDigBio), Chris Wilson (IDigBio) Imaging Biodiversity Specimens: First Steps to a Great Start (and Beyond) Austin Mast, Florida State University, Dept of Biological Science; Lauren Cohen, FSU, Institute for Digital Information and Scientific Communication; Nicole James, FSU, Institute for Digital Information and Scientific Communication; Alex Adkinson, FSU, Department of Art Including Indigenous Metadata in Collection Records Maui Hudson, University of Waikato; Jane Anderson, New York University Solutions for long-term image storage and accessibility Dave Blackburn, University of Florida; Doug Boyer, Duke University; Nico Franz, Arizona State University; Michelle Koo, University of California - Berkeley; Nelson Rios, Yale University; Julie Winchester, Duke University Sustaining Institutional Digitization of Biodiversity Collections: Considerations and Examples Austin Mast (iDigBio, FSU), David Jennings (iDigBio), Jenn Yost (Symbiota Support HUB, CalPoly), Lindsay Walker (Symbiota Support HUB, ASU) Capturing trait data: broad, across different taxonomic groups Rob Guralnick, Florida Museum of Natural History; Maggie Hantak, FLMNH; Ed Stanley, FLMNH; Julie Allen, University of Nevada at Reno; Jacob Idec, FLMNH; Bryan McLean, University of North Carolina, Greensboro Gil Nelson, PhD Director, Integrated Digitized Biocollections (iDigBio) President, Natural Science Collections Alliance (NSCA) Florida Museum of Natural History University of Florida gnelson(a)floridamuseum.ufl.edu

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BiotaPhy Webinar Series
by Nelson,Gil 14 Sep '22

14 Sep '22

BiotaPhy Hi everyone, Do you want to learn how to use occurrence data and available software to address questions in ecology and evolutionary biology but haven’t had a chance to take a course and are overwhelmed by the options for self-teaching? Would you like to incorporate this sort of research into your classes but don’t have time to create the materials and examples? If either of these applies, then join the BiotaPhy Project for an upcoming series of 10 webinars designed to take you from biological question to data acquisition and cleaning to analysis and interpretation! BiotaPhy is a collaboration among iDigBio, the Open Tree of Life, and Lifemapper projects and personnel. We have converted our popular summer workshop into a webinar series; see below for topics. Webinars will be held Wednesdays at 12:30 pm Eastern time, beginning September 21. All webinars will be recorded and made available, so you won’t get behind if you need to miss a session. The schedule is: Webinar 0: Terms, Concepts, Data Formats – A Tutorial for Background Available online at the registration page [coming soon!] Webinar 1: Introduction: Scope and Research Potential for Multidisciplinary Biodiversity Modeling and Analysis Date: 09/21/2022 Webinar 2: Resolving Nomenclature: Making Appropriate Taxonomic Choices Date: 09/28/2022 Webinar 3: Clean Your Dirty Data Date: 10/05/2022 Webinar 4: Georeferencing with GEOLocate Date: 10/12/2022 Webinar 5: Big Data Munging (a.k.a Splitting and Merging Occurrence Data by Taxa from Multiple Sources) Date: 10/19/2022 Webinar 6: Species Distribution Modeling 1 Date: 10/26/2022 Webinar 7: Species Distribution Modeling 2 Date: 11/02/2022 Webinar 8: Introducing Presence-Absence Matrices for Large Scale Analyses Date: 11/9/2022 Webinar 9: Phylogenetic Diversity: Integrating Phylogenies with Species and Biogeographic Data Date: 11/16/2022 Webinar 10: Hypothesis Testing and Randomization Date: 11/30/2022 To register, please go to https://ufl.zoom.us/meeting/register/tJclfuCtrDwjE9PnPXJYkiSnglbnNd_BYCS4. Note that you will need to register separately for each week so that we can plan for weekly attendance. And for more information, visit https://www.idigbio.org/content/biotaphy-2022-webinar-series<https://nam10.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.idigb…> Please share with your networks, and sorry for cross-postings! Hope to see you soon! Best, Pam ----- Pamela S. Soltis (she/her/hers) Director, UF Biodiversity Institute Distinguished Professor and Curator Laboratory of Molecular Systematics and Evolutionary Genetics Florida Museum of Natural History Dickinson Hall University of Florida Gainesville, FL 32611 Phone: (352) 273-1964 Fax: (352) 846-2154 Email: psoltis(a)flmnh.ufl.edu<mailto:psoltis@flmnh.ufl.edu>

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automated response
by Christy Semmens 05 Aug '22

05 Aug '22

Thank you for your message. I am currently out of the office with little to no internet access until August 8. If you have an immediate need, please contact martha(a)REEF.org. Otherwise, I will get back with you as soon as I am able.

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