Connections. Digital Humanities. Digitizing Specimens. ESN. Geo. Literature. OCR. Portals. Visual. BioNext. Georeferencing Calculator Manual. Direction see heading. distance above surface In addition to elevation and depth, a measurement of the vertical distance above a reference point, with a minimum and a maximum distance to cover a range.
For surface terrestrial locations, the reference point should be the elevation at ground level. Over a body of water (ocean, sea, lake, river, glacier, etc.), the reference point for aerial locations should be the elevation of the air-water interface, while the reference point for sub-surface benthic locations should be the interface between the water and the substrate. Degrees, minutes and seconds – one of the most common formats for expressing geographic coordinates on maps. Easting Within a coordinate reference system (e.g. as provided by a GPS or a map grid reference system), the line representing eastward distance from a reference meridian on a map. elevation A measurement of the vertical distance of a land or water surface above a vertical datum.
Ellipsoid entry point error event extent geoid.
iDigBio. iPhylo. ICEDIG Project Outcomes. Addressing today’s global environmental challenges requires access to significant quantities of data.
This holds especially true for the natural sciences, where one rich data trove remains unearthed: The European scientific collections. These jointly hold more than 1.5 billion objects, representing 80% of the world’s bio- and geo-diversity. With only 10 % of these objects digitised, their information remains vastly underused, thus impeding potential applications of this critical scientific resource. Debunking reliability myths of PIDs for Digital Specimens – DiSSCoTech. In this post I address an erroneous assertion – a myth perhaps, that the proposed Digital Specimen Architecture relies heavily on a centralized resolver and registry for persistent identifiers that is inherently not distributed and that this makes the proposed “persistent” identifiers (PID) for Digital Specimens unreliable.
By unreliable is meant link rot (‘404 not found’) and/or content drift (content today is not the same as content yesterday). This assertion and its concerns (myths) came during a lively Q&A and associated ‘chat’ that took place while I was presenting the recent progress in development of the openDS standard at the virtual TDWG 2020 SYM07 symposium this week. I want to show that any such issues are not those of the persistent identifier scheme itself or its associated service provider organizations but are usually human failings and inadequacies in the management and procedures adopted by users of such schemes. Myth: doi.org is centralized Like this: Like Loading... Posters for TDWG 2020 - TDWG. An analysis of data paper templates and guidelines: types of contextual information described by data journals.
A benchmark dataset of herbarium specimen images with label data. Costbook of the digitisation infrastructure of DiSSCo. A workflow for standardising and integrating alien species distribution data. 5 essential tools for nature conservation we are still missing (Part 1/2) Small Collections Network. The Impact of Brazil’s Virtual Herbarium in e-Science. By Dora Ann Lange Canhos1, Sidnei de Souza1, Alexandre Marino1, Vanderlei Perez Canhos1, and Leonor Costa Maia2 1Centro de Referência em Informação Ambiental – CRIA 2Universidade Federal de Pernambuco, UFPE.
New ALA strategy for 2020-2025 – Atlas of Living Australia. Today we release our Atlas of Living Australia Strategy 2020-2025.
The Atlas of Living Australia (ALA) strategy has been shaped extensively by input from our national and international partners who contributed so actively to our 2019 ALA Future Directions national consultation process. As Australia’s national biodiversity data infrastructure and one of the world’s foremost such capabilities, we rely on the strength of our partnerships with data providers, users and stakeholders.
Indeed, the genesis of the ALA was built on the strength and richness of existing relationships within the museums, collections and herbaria communities. Australia’s fruitful partnership with the Global Biodiversity Information Facility (GBIF) also provides our community a unique opportunity to ensure that local, regional or national biodiversity data delivers impact globally. The ALA is particularly proud of the relationship we play hosting the Australian node of GBIF. Case Study: Brazilian Virtual Herbarium. Data Management Plan: Brazil's Virtual Herbarium.
The Tragedy of #OpenData - Comprehension 360. It Is A Commons Tale (no, that s is not a typ-o)
Born-digital collection software. Biologists conducting field research, such as floristic studies, accession thousands of specimens into natural history collections.
Many of these specimens’ digital records are now becoming available through online portals such as iDigBio ( the Global Biodiversity Information Facility (GBIF) (Global Biodiversity Information Facility, 2018; Symbiota (Gries et al., 2014; and regional consortia (e.g., SouthEast Regional Network of Expertise and Collections [SERNEC]; One major challenge in digitizing these specimens is the accurate transcription of physical labels into digital formats. Numerous workflows have been presented to address this challenge, whereby citizen scientists, students, or professionals are tasked with transcribing these data (Hill et al., 2012; Ellwood et al., 2015; Harris and Marsico, 2017; Sweeney et al., 2018).
The success of migrating collections to a born‐digital workflow will depend on the adoption of these new methods by field biologists. CollNotes development. Green digitization: Online botanical collections data answering real-world questions - Soltis - 2018 - Applications in Plant Sciences. Recent advances in digital technology, coupled with rapidly increasing interest in the creation and dissemination of digitized specimen data for use in broad-scale research by botanists and other organismal scientists, have encouraged the development of a variety of new research opportunities in the botanical sciences (e.g., Page et al., 2015; Soltis, 2017).
It is now increasingly possible to collect, use, re-use, and share data more easily and effectively. With the advent of the U.S. Herbarium data: Global biodiversity and societal botanical needs for novel research - James - 2018 - Applications in Plant Sciences. Research use of herbarium data Herbarium specimens and their data are, for the most part, verifiable, repeatable, sustainable, and persistent (Page et al., 2015; Holmes et al., 2016).
Temporal data across taxonomic groups, communities, and habitats enable assessment of changes in species distributions, dispersal ability, or clade differences. The Australasian Virtual Herbarium: Tracking data usage and benefits for biological collections - Cantrill - 2018 - Applications in Plant Sciences. Abstract Premise of the Study Globally, natural history collections are focused on digitizing specimens and information and making these data accessible. Usage information on National Herbarium of Victoria data made available through the Atlas of Living Australia and The Australasian Virtual Herbarium (AVH) is analyzed to understand how and by whom herbarium data are being used.
Methods. ePlant: Visualizing and exploring multiple levels of data for hypothesis generation. The application of systems biology is quite phenomenal these days for prediction-based modeling and interactive data visualization. Along with the genome sequencing of the model plant Arabidopsis thaliana, there has been a parallel increase in systems biology tools. Unfortunately, these tools have been developed by different groups or institutions for various purposes, whereas a unifying and comprehensive systems biology toolbox is more convenient to connect multiple databases and generate prediction models or build hypothesis. ePlant provides that purpose for Arabidopsis thaliana.
In ePlant, Wrase et al. incorporated multiple datasets and integrated search system for analysis and visualization in a single portal. ePlant Steps into the Breach for Plant Researchers. The ever-increasing amount of data available to researchers has come with similarly increasing cognitive loads in efforts to use these data. Even when data sets are stored in well-curated databases, it can be time-consuming to master the specific tools harbored at each site and cumbersome to move between data types.
A new tool created by Waese et al. (2017) aims to facilitate hypothesis generation in plant biology by allowing researchers to easily and intuitively move between types and levels of data. ePlant: Data Visualization Tools for Plant Data. CyVerse: Meeting Those Midnight Computing Needs. Papua New Guinea is home to hundreds of Begonia species - possibly one of the fastest radiations of flowering plants. This species is unidentified, but will soon be sequenced using Hyb-Seq by Hannah Wilson as part of her doctoral project at RBGE. The data will be analyzed with CyVerse resources.
Image: RBGE Herbarium. For researcher, lecturer, mother, and CyVerse community member Catherine Kidner, nothing beats having extensive computing power under her finger. Cyberinfrastructure for Data Management and Analysis. Figshare: Research platform for biodiersity discovery. IPBES Data Management Policy. January 24, 2020 Data management plan Open Access Intergovernmental Science-Policy Platform on Biodiversity and Ecosystem Services Editor(s) Krug, Rainer M.; Aboki Omare, Benedict D Niamir, Aidin.
Where is Web Science? From 404 to 200. What I cannot create I do not understand. — Richard Feynman. PhyloJive – Integrating biodiversity data with phylogenies. 23 October, 2012. Data mining and machine learning to identify collectors and collecting trips. Nicky Nicolson, a PhD candidate from the United Kingdom at Brunel University London, is one of two recipients of the GBIF Young Researchers Award for 2019. As a staff member at the Royal Botanic Gardens, Kew, Nicolson is well-known within the GBIF community, having recently switched from a technical software development role, to senior research leader in biodiversity informatics while pursuing her graduate studies.
For centuries, naturalists collecting plants in the field have generally gathered at least five or six representative samples of any specimen. After drying and preparing the specimens and returning to the herbarium, they would then often split up these groups and distribute the individual specimens to other institutions. Towards a biodiversity knowledge graph. Pensoft journals integrated with Catalogue of Life to help list the species of the world. While not every taxonomic study is conducted with a nature conservation idea in mind, most ecological initiatives need to be backed by exhaustive taxonomic research.
There simply isn't a way to assess a species' distributional range, migratory patterns or ecological trends without knowing what this species actually is and where it is coming from. In order to facilitate taxonomic and other studies, and lay the foundations for effective biodiversity conservation in a time where habitat loss and species extinction are already part of our everyday life, the global organisation Catalogue of Life (CoL) works together with major programmes, including GBIF, Encyclopedia of Life and the IUCN Red List, to collate the names of all species on the planet set in the context of a taxonomic hierarchy and their distribution. In addition, CoL will also consider for indexing global taxonomic checklists, which have already been published by Pensoft.
Automated pipeline for nomenclatural acts. Confusion: The Biodiversity Informatics Landscape. Article metadata Introduction Methodology Results Discussion Next steps Annex 1. Element expanded names Annex 2. Management, Archiving, and Sharing for Biologists and the Role of Research Institutions in the Technology-Oriented Age. Skip to Main Content Sign In Register. Imago at Indiana U, links library and natural history databases. Cross-Linking NCBI (DNA) & EMu Records. From Plant Press, Vol. 20, No. 2, April 2017. Integration of Big Data and the Science of the Christmas Tree. Unmet Needs for Analyzing Biological Big Data: A Survey of 704 NSF PIs.
RainBio: Using the “Natural History Large Hadron Collider” to tell us about plant diversity. Tropical forest, Liberia. Pixnio.