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...d challenges of digitizing natural history collections with a focus on the use of OCR and NLP. Panel presentations planned encompass an all-inclusive worl ...OCR software of their choice to output the cleanest OCR possible and 2) to use NLP algorithms in an effort to parse the OCR output into Darwin Core fields

...ations and best practices related to paleontology/geology digitization and data transcription efforts. ...6.pdf|EVOLUTION OF A DATABASE: FROM EXCEL TO SPECIFY AND THE ERA OF MODERN DATA PUBLISHING]:

...ico does not suggest that their query API can be secured against malicious use. It it also possible to construct very CPU expensive queries and since our ...ord set in iDigBio named by recordset uuid as well as files containing all data across all records sets.

...ssible through the MyCoPortal and iDigBio websites for research and public use. Student training, course development, and public engagement through worksh ...rough the Advancing Digitization of Biological Collections program and all data resulting from this award will be available through the national resource (

...teachers will be introduced to natural history collections and collections data, the iDigBio portal, and example lesson plans using the portal, and then wi ...1) increasing the knowledge of natural history collections and collections data; (2) increasing the competency for implementing collections-based activitie

Most normal use cases (e.g. viewing data via tools driven by actual users) should not experience performance issues. You may notice significant performance issues if you use high offset/start numbers and large limitt/offset

...topics include: delineating which ecology groups can best use collections data (and which cannot), looking at what might be possible in the future to supp ...logical_Research_at_ESA_2016|Leveraging the Power of Biodiversity Specimen Data for Ecological Research]] at ESA 2016

...e a proposal to conduct a feasibility study around charging for the use of data services. This proposal is part of the requirements for iDigBio funding fro

...rough the Advancing Digitization of Biological Collections program and all data resulting from this award will be available through https://www.idigbio.org

...ke using them in research difficult and inefficient. Digitizing images and data makes specimen information more visible and accessible, increasing the pote ...rough the Advancing Digitization of Biological Collections program and all data resulting from this award will be available through the national resource (

...nersPhotos.pdf into a wiki web page with participants for the community to use as a resource. #Now we can include data: trainings done, links to syllabus & materials covered. (for Terri, Angelik

...015 Ignite Session: '''Enhancing Ecological Research with iDigBio Specimen Data''' at the Ecological Society of America 2015 Conference in Baltimore, Maryl ...joins us to talk about data issues and tips for creating robust, re-usable data.

=== Decisions about Image Sets and How to Parse and Process the Data === ***CAUTION: If you are using excel to enter data, be aware that it will auto-format dates and convert the verbatim text to a

...ntal change? In addition, exposure of these historical specimens and their data will be useful for studies of changes in the local vegetation. ...rough the Advancing Digitization of Biological Collections program and all data resulting from this award will be available through the National Resource (

...of GPS Locality Descriptions<br>Georeferencing Natural History Collections Data: The GEOLocate Project, What to Do<br>Using GEOLocate: Basics (Web Applicat ...>Open Work Session - Participant/TCN Georeferencing Projects (use your own data sets)<br>Batch Georeferencing in Symbiota: John Brinda, MOBOT (Participant)

...logical-collections-databases Biological Collections Databases, Tools, and Data Publication Portals].'' This page can be linked to using the shortlink, [ht ..., and geography, enabling extended use, and developing new database tools. Data and media hosting is provided by the Texas Advanced Computing Center (TACC)

...these data, and the benefits of working together to respectfully use these data to address critical environmental and societal issues. This group recognize

...tps://arcticdata.io/|alt=Arctic Data Center|Visit the Arctic Data Center - Data and software from NSF Arctic research]] ...w.datacite.org/|alt=Data Cite|Leading global provider of DOIs for research data]]

...ovide a valuable resource to teach about the iterative process of science, data literacy, critical thinking, quantitative biology, communication in the sci ...ns professionals and educators to discuss novel and engaging techniques to use collections in education, elicit the best learning outcomes for students, a

...rough the Advancing Digitization of Biological Collections program and all data resulting from this award will be available through the national resource (

[[Category:Data Quality]] ...ement systems and CMS-agnostic tools. Data quality issues are grouped into data categories, and links to resources for identifying and fixing the issues ar

...al resources to provide a high level of expertise in both digitization and data management. ...the accessibility of collections to the public and easily exchange digital data.

...ses. For info on GUIDs go here: https://www.idigbio.org/content/guid-guide-data-providers-0}} ...a web page will be returned by the web server. iDigBio will use the Linked Data protocol for serving web pages and metadata documents.

'''Full Title:''' Completing the Data Pipeline: Collections Data Use in Research, Education and Outreach ...ory collections can safely claim the distinction of being a source of ‘big data”.

...onversation on Mobilizing Natural History Collections Data and Integrating Data for Research''', Berlin, Germany, 16 June 2016. ...gitization lessons learned so far, facilitating worldwide digitization and data access, prioritizing digitization collaboratively, and investigating the id

...s, which will, in turn, facilitate rich, automated, and truly reproducible data integration and aggregation. ...enetic comparative analyses, and a well-designed ontology should result in data sets that are broadly useful across all these fields.

...ess critical issues related to georeferencing workflows and georeferencing data quality. We will bring representatives from the paleo TCNs/PENs together wi ...community on best practices and workflows for generating and sharing this data.

...re only some of the resources on the iDigBio website. We encourage you to use them and to explore on your own. Why not start a ‘Wiki’ page for your If you are looking for funding for digitization of biodiversity collections data, below are some NSF resources.

...//www.dataone.org/sites/all/documents/DataONE-PPSR-DataManagementGuide.pdf Data Management Guide for Citizen Science] - DataONE Public Participation in Sci ...nizers optimize the quality, usability, and accessibility of their project data.”

...digitization. We'll hear about new strategies for scaling up and improved data quality, and get input from the herbaria, fish, and paleo collections. We'l ...use,''to help the collections themselves? How does the aggregation of this data help collections more effectively advocate for themselves? How can it be us

...georeferencing materials and links to materials here in the Wiki Pages for use by the entire community. We encourage you to share your georeferencing work ...our natural history collection specimen data. This collection of sites and data was put together by the GWG and the broader community. Please add to it!

...ith special relevance to the phylum. The research use of digitized mollusk data and various applications by other stakeholder forms a prominent component o ...ocument/d/1295PoU-vS-RPjD8xA86iRJdp_Z-RKW3bmFC8Mc-SgsI/edit?usp=sharing 2. Data entry, workflow]

...ionals. Ultimately we hope to have a trade show finale at the 2024 Digital Data Conference at KU featuring highlighted topics from the workshops.

...der the Apache License, Version 2.0 with a very modular design through the use of plugins. ...your-text-data-using-ocr-output Calendar Announcement: Visualize Your Text Data Using OCR Output] Wednesday 10 AM EST 22 January 2014

##need search for FL/AL but uncertainty includes points in AL (polygon data) ###"R-trees" spatially index the data

...l use a predetermined set of representative paleo collecting sites as test data for this workshop. ...ecently been updated to the latest version. We recommend that participants use a headset for audio. To get started with Zoom, we suggest the video tutoria

...quipment, automated label digitization tools, and programs for analysis of data/ images. DemoCamp presentations feature the latest developments in current 4:10 PM Taking Collection Data Places Where It Has Never Gone Before - Specify Insight for the iPad

...research-use-virtual-mini-workshop Finding Field Station Data for Research Use]''. Link to this wiki using [http://bit.ly/obfs-idigbio-2020 bit.ly/obfs-id ...gs, as well as how these records might be used to augment existing station data.

We worked on tools to help with reconciling and interpreting crowd-sourced data. One possible workflow might go like this: * Or, use sequence alignment tools to find the best transcription of subregions in a

...-size:9pt" | Quick Links for Leveraging the Power of Biodiversity Specimen Data for Ecological Research ...ata-for-ecological-research/ Leveraging the Power of Biodiversity Specimen Data for Ecological Research – at ESA 2016]

! colspan="2" style="background:#D58B28;width:200px;font-size:10pt" |Data Carpentry ...yle="background:#D58B28;text-align:center;font-size:9pt" | Quick Links for Data Carpentry

...2015 Symposium - Specimens Full Circle: Collection to Digitization to Data Use''', Gainesville, Florida, 20 May, 2015. ...ization (includes imaging and other media), use of the resulting digitized data in research, and digitization project management.

This wiki supports the workshop entitled Using Biodiversity Specimen-Based Data to Study Global Change. The workshop is sponsored by [https://www.idigbio.o ...nd:#D58B28;width:200px;font-size:10pt" | Using Biodiversity Specimen-Based Data to Study Global Change

==About the Data Help Desk== ...meeting attendees about questions, comments and concerns using DHD partner data in their own discipline and area of research. The conference is being held

...tps://arcticdata.io/|alt=Arctic Data Center|Visit the Arctic Data Center - Data and software from NSF Arctic research]] ...r|200px|link=https://www.dataone.org|alt=Data ONE|A distributed network of data centers, science networks, and organizations]]

...urrence Editor, monitoring statistics, duplicate cleaning, and downloading data. ...sourcing features for establishing, performing, and reviewing crowdsourced data from both the volunteer and portal manager perspectives.<br>

...inks for SPNHC-TDWG2018 Symposium:<br/>Challenges Implementing Collections Data Quality Feedback ...sium_-_Challenges_Implementing_Collections_Data_Quality_Feedback#Resources|Data Quality Resources]]

*'''Niger Republic: Presentation on available biodiversity data organization & management for better monitoring and uses''' ...dentifiers for collection specimens: What could the Nodes do to spread the use of this practice?'''

...st/Working Groups focused on Digitization. For other working groups please use the following link [https://www.idigbio.org/wiki/index.php/IDigBio_Working_ *[[ Electronic Data Capture | Electronic Data Capture]]

...ks closely with many local institutions. DigiVol is unconditional, free to use, and includes a choice of validation: volunteer manual or auto-consensus. Notes From Nature's primary data providers are researchers and museums interested in transcription or classi

== MorphoSource: The first open access digital archive for high fidelity 3D data on morphological phenomes == ...quality cyber infrastructure for the secure storage of large volumes of 3D data on organismal anatomical structure (morphological phenomes) in a sustainabl

...sets for further analysis or educators to integrate biodiversity data for use in the classroom. A key challenge is to know when it is good to develop a c 4/16/2028 Data Cleaning Module (Anne Barber)

...cycle management, including digitally archiving and mobilizing collections data and participation in global initiatives. The course will be led by museum a ...d collection object imaging, data mobilization, data and media management, data cleanup tools and methods, and best practices for these subjects.

*Please use [http://tinyurl.com/AOCRhackNotes AOCRhackNotes] to Capture your ideas, ins **We are excited to use this process and have found it extremely useful for collaborating effective

...munity examples of museum specimen data integrated with other biodiversity data to enhance and inform efforts to address key ecological questions and suppo ...ent data and asking what data might be collected in the future to make the data more useful to the ecologists of the future, 4) development of the conserva

[[Category:Data ingestion]][[Category:CYWG]] Once the data was received, the first step was to verify the uniqueness of the identifier

==Identifiers, Databases, and Sharing Data== ...tions/SharingData2.pptx It's About Data: Identifiers, Darwin Core, Sharing Data, Choosing a Database, Digitization Maturity (pptx by iDigBio's Deborah Paul

*reporting findings after working with real image data and programmers to improve parsing of OCR output.<br> ...g/content/demo-webinar-visualize-text-data-using-ocr-output Visualize Text Data From OCR Output] is set up for 22 January 2014 to spread the word about how

[[Category:Data Quality]] This toolkit contains Specify-specific resources for the [[Data Quality Toolkit 2024]].

[[Category:Data Quality]] This toolkit contains TaxonWorks-specific resources for the [[Data Quality Toolkit 2024]].

The following are anecdotes contributed by users of iDigBio's data and data portal. They aim to be helpful in several ways: ...g data should read them and make adjustments and improvements in their own data to avoid the issues found by others.

[[Category:Ecology]][[Category:Voucher]][[Category:Data use]][[Category:Research]][[Category:Bioblitz]] ...t, as ecologists, on what information is critical to capture to make these data fruitful for your research.

...data portal (SEINet) to provide web access to collections data and images. Data entry was found to be about as fast to considerably faster using the SALIX

'''Developing Robust Object to Image to Data (DROID2)''' ...lows here on the iDigBio website from the broader community for collective use. Your input is welcome!

...d up and improve access to digitization of natural history museum specimen data and we think the Information Science community can help.''' Five talks foll ...at data to iDigBio. iDigBio is building a cyberinfrastructure to integrate data from museums across the USA, making it accessible to everyone.

...E., Neill, A., Nelson, G., & Ulate, W. (2013). Help iDigBio reveal hidden data - iDigBio Augmenting OCR working group needs you. iConference 2013 Proceedi ...reate a national searchable online specimen-based data set that is fit-for-use by scientists and the public. Some ideas generated in this session may be i

...support collaborative projects by providing shared access to a variety of data on voucher specimens, taxonomy, bibliography, morphology, DNA samples and s ...Symbiota web tools strive to integrate biological community knowledge and data in order to synthesize a network of databases and tools that will aid in in

...iodiversity crisis. One goal of this project is to develop a comprehensive data resource (the Pacific Island Land Snail Biodiversity Repository; PILSBRY) t ...transcribing data from scanned ledgers, field notes, and other associated data through online portals. Eventually additional web-based tools and smart pho

...policies and decision making associated with conservation and sustainable use. ...are this information in a way to maintain a database and enable access and use of this knowledge.

[[File:Spnhc-2022-data-help-desk.png|400px|right|class="w3-border w3-padding"]] ...a concurrent virtual Data Help Desk. Our team will be happy to discuss any data-related questions or issues you may have, such as:

...ration'' and ''dissemination'' of biodiversity museum collections specimen data can be sped up if the output from OCR can be parsed faster and more accurat ...g to successfully populate as many of the selected Darwin Core (and other) data elements as possible into a CSV file. These participant-generated CSV files

[[Category:Data ingestion]][[Category:CYWG]][[Category:RSS]][[Category:Documentation]] ...tomated ingestion of data from a provider into iDigBio is possible via the use of a Really Simple Syndication (RSS) feed. The RSS feed contains metadata a

...[[Category:Biodiversity informatics]][[Category:Data standards]][[Category:Data mobilization]] ...#D58B28;width:200px;font-size:10pt" | Managing Natural History Collections Data for Global Discoverability

...a look at the [https://github.com/tdwg/cd/tree/master/reference/use_cases Use Cases] gathered by the [https://www.tdwg.org/community/cd/ CD community at ...and policy-development. While the value of collection objects and related data seems obvious for those using them, it is often difficult to gather metrics

...will appear in the AR interface allowing users to access further specimen data and content. (3) All TCN E&O coordinators will be engaged in a shared and ...and informal education while promoting accessibility of digitized specimen data to K-20 students and underrepresented groups

...ouncements about iDigBio's APIs and ways of programmatically using iDigBio data ...o.org/wiki/index.php/IDigBio_Working_Groups#Data_Management_Interest_Group Data Management Interest Group]

...ining may be offered in one or two key areas, for example, georeferencing, data standards, and review of recommendations based on the Five Task Clusters p :electronic data capture

[[Category:Data Quality]] ...rctos see [https://handbook.arctosdb.org/documentation/data_quality Arctos Data Quality Checks, Reports, and Tools]

...[[Category:Biodiversity informatics]][[Category:Data standards]][[Category:Data mobilization]] ...n="2" style="background:#D58B28;width:200px;font-size:10pt" | Data Sharing Data Standards and Demystifying the IPT

...his wiki and to a stand-alone website. '''Please visit us at https://paleo-data.github.io to see what the group is up to and to get in touch!''' '''Paleo Data Happy Hours'''

...ientific collections. ''These are not necessarily available for widescale use, and potential users should contact the individual projects below to discus *Workflow Procedures, Data Management and Visualization

[[Category:Data Quality]] ...ith a Darwin Core-formatted file, for example, a spreadsheet of occurrence data exported from GBIF as a Darwin Core Archive.

...n mind small collections, crowd-sourcing versus in-house digitization, and data quality.</p> ...:20 - 4:40||10:20-10:40am||Streamlining specimens digitisation through the use of Inselect - a curator's perspective||'''Natalie Dale-Skey'''

...d into our renewal. In particular, our focus will be shifting towards data use and sustainability. * Should our search portal go away and instead make all data being accessible through GBIF by 2021?

*[https://www.idigbio.org/content/digital-data-paleontological-research-workshop Initial Workshop Announcement] ...rtical-align:top; background-color:#eed1a9;"|<b>Round up of Existing Paleo Data Projects<br>Lightning Rounds<br>VLSB 2040</b>

...to the workshop remotely] (Send an email to Austin Mast, if you'd like to use the room for additional collaboration after the hackathon.) ...Images]. This is several GB worth of image files. To get them, you could use the DownloadThemAll Firefox plugin.

...with results to define the course forward for expanding and enhancing the use of fluid-preserved specimen images across all domains. |style="background-color:#ffffc7;"| Brainstorm session #5: Enriching Data through Trait Extraction from Images

...ollections by non-scientists through access to specimen images and related data. <li> Effects of land use change on the biota of Upper Midwest US over time, including contractions a

...will focus on the data creation, and the second will focus on usage of the data with a large focus on leveraging A.I. ...omography, VR, AI, multispectral imaging, lidar/remote sensing, robotics, data standards, and acoustic capture for the biodiversity collections community.

...ill be involved virtually, by contributing transcription of specimen label data. ...formats, thereby dramatically enhancing the accessibility of biodiversity data for comprehensive, systems-based analysis of ocean ecosystems.

Encourage others to use us / our materials / our TTT trainees as a resource To Shari: Updated stats please. (raw data available)?

====July 28: Planning for Virtual Events: Lessons learned from Digital Data & SPNHC Conference Planners==== ====August 25: Executing Virtual Events: Lessons learned from Digital Data & SPNHC Conference Planners====

[[Category:Data ingestion]] ...the iDigBio roadmap, the focus of the initial group will be on the iDigBio data ingestion procedures related to API (Application Programming Interface) or

...tation/d/1j7kioaW6RDjNBBKh0Z_IOnt34VyQYHDAEV914uXTbrw/preview iDigBio Data Use] by Pam Soltis ...le.com/presentation/d/1XeolyupDSvFaQ-BFeWtu7Hi7eKFlhuCMtyaqXtnEtU8/preview Data Modeling Workshop] by Greg Riccardi

...st/Working Groups focused on Digitization. For other working groups please use the following link [https://www.idigbio.org/wiki/index.php/IDigBio_Working_ ...2015 Symposium - Specimens Full Circle: Collection to Digitization to Data Use (May 20, 2015)]

...readsheets/d/1dGUN-olbdprZDJoOctrNLOAXhJsZ54LOVyhCvrLOq9I/edit?usp=sharing Use this form to self organize ride shares.] ...org/wiki/images/5/53/TPTWorkshop2020Chicago_GroupExercise.pdf Interactions Data Group Exercise]

== Digitization TCN: Mobilizing New England Vascular Plant Specimen Data to Track Environmental Change (NEVP) == |[[Mobilizing New England Vascular Plant Specimen Data#Project Summary|Project Summary]]

...t is that you do not have to deal with setting up your own OCR software to use this puppy. A drawback is that I see a lot of the OCR results are terrible ...s can view the source of the page as a reference and see how easy it is to use this REST API. Because this is a simulator for development against a known

...bout what a barcode is and isn't, how it should be used, what equipment to use to read and manage barcodes, and what best practices exist for different co ...r numeric-only barcodes. It can encode all 128 characters of ASCII and, by use of an extension character (FNC4), the Latin-1 characters defined in ISO/IEC

...rg/content/idigbio-bis-tdwg-2014-some-digitization-crowd-sourcing-and-data-use-too TDWG 2014 IV Report] ...ality control and long-term preservation of images? What techniques are in use by many institutes, who are capturing images of their natural history colle