Collections Digitization Workflows and Protocols: Difference between revisions

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* [https://www.idigbio.org/content/digitization-workflows iDigBio's Collaborative Workflows Page (DROID Working Groups)]
* [https://www.idigbio.org/content/digitization-workflows iDigBio's Collaborative Workflows Page (DROID Working Groups)]
* [https://www.idigbio.org/content/workflow-modules-and-task-lists Workflow Modules and Task Lists developed at DROID Workshop]
* [https://www.idigbio.org/content/workflow-modules-and-task-lists Workflow Modules and Task Lists developed at DROID Workshop]
*[https://www.idigbio.org/content/workflow-elements-and-concepts-common-practices Workflow Elements and Concepts: Common Practices, presentation by Gil Nelson]
*[http://zookeys.pensoft.net/browse_journal_issue_documents?issue_id=361 No specimen left behind: mass digitization of natural history collections (Zookeys Special Issue)]
*[http://zookeys.pensoft.net/browse_journal_issue_documents?issue_id=361 No specimen left behind: mass digitization of natural history collections (Zookeys Special Issue)]
*[https://www.idigbio.org/wiki/index.php/Specimen_Image_Capture Specimen Image Capture: collected resources about image specifications, files, equipment and other resources]
*[https://www.idigbio.org/wiki/index.php/Specimen_Image_Capture Specimen Image Capture: collected resources about image specifications, files, equipment and other resources]
*[http://zookeys.pensoft.net/articles.php?id=2914 InvertNet: a new paradigm for digital access to invertebrate collections (Zookeys article)]
*[https://www.idigbio.org/wiki/index.php/Imaging_References Collected Imaging References]
* [https://www.idigbio.org/content/idigbio-intellectual-property-policy iDigBio's Intellectual Property Policy]
* [https://www.idigbio.org/content/idigbio-intellectual-property-policy iDigBio's Intellectual Property Policy]


== Herbarium Digitization Workflows and Protocols ==
== Herbarium Digitization Workflows and Protocols ==
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! scope="col"| Last Updated
! scope="col"| Last Updated
|-
|-
|[https://www.idigbio.org/wiki/index.php/Florida_State_Herbarium_Imaging_Protocol Florida State Herbarium Imaging Protocol]
|[[Florida_State_Herbarium_Imaging_Protocol | Florida State Herbarium Imaging Protocol]]
|Florida State Herbarium
|Florida State Herbarium
|Unknown
|May 2012
|-
|-
|[https://www.idigbio.org/wiki/index.php/Valdosta_State_University_Herbarium_Vascular_Plant_Imaging_Protocol Valdosta State University Herbarium Vascular Plant Imaging Protocol]]
|[[Valdosta_State_University_Herbarium_Vascular_Plant_Imaging_Protocol | Valdosta State University Herbarium Vascular Plant Imaging Protocol]]
|Valdosta State University Herbarium
|Valdosta State University Herbarium
|Unknown
|Unknown
|-
|-
|[https://www.idigbio.org/wiki/index.php/Valdosta_State_University_Herbarium_Bryophyte_Packet_Imaging_Protocol Valdosta State University Bryophyte Packet Imaging Protocol]]
|[[Valdosta_State_University_Herbarium_Bryophyte_Packet_Imaging_Protocol | Valdosta State University Bryophyte Packet Imaging Protocol]]
|Valdosta State University Herbarium
|Valdosta State University Herbarium
|Unknown
|Unknown
|-
|-
|[https://www.idigbio.org/wiki/index.php/Valdosta_State_University_Herbarium_Image_Processing Valdosta State University Image Processing with Nikon Dust Off Process included]
|[[Valdosta_State_University_Herbarium_Image_Processing | Valdosta State University Image Processing with Nikon Dust Off Process included]]
|Valdosta State University Herbarium
|Valdosta State University Herbarium
|Unknown
|Unknown
|-
|-
|[https://www.idigbio.org/wiki/index.php/Consortium_of_Pacific_Northwest_Herbaria_Imaging_Workflows Consortium of Pacific Northwest Herbaria imaging workflows]
|[[Consortium_of_Pacific_Northwest_Herbaria_Imaging_Workflows | Consortium of Pacific Northwest Herbaria imaging workflows]]
|Consortium of Pacific Northwest Herbaria
|Consortium of Pacific Northwest Herbaria
|Unknown
|July 2010
|-
|-
|[https://www.idigbio.org/wiki/index.php/STAR_Herbarium_Digitization_Workflow STAR Herbarium Digitization Workflow]
|[[STAR_Herbarium_Digitization_Workflow | STAR Herbarium Digitization Workflow]]
|Arkansas State University STAR Herbarium
|Arkansas State University STAR Herbarium
|Unknown
|Unknown
|-
|-
|[https://www.idigbio.org/wiki/index.php/Plant_Imaging,_Harvard_University_E-Type_Initiative Plant Imaging, Harvard University E-Type Initiative]
|[[Plant_Imaging,_Harvard_University_E-Type_Initiative | Plant Imaging, Harvard University E-Type Initiative]]
|Harvard University Entomology
|Harvard University Entomology
|Unknown
|Unknown
|-
|-
|[https://www.idigbio.org/wiki/index.php/Global_Plants_Initiative_Partner_Handbook Global Plants Initiative Partner Handbook]
|[[University_of_Vermont_Pringle_Herbarium_GPI_Pre-Digitization_Curation_Workflow | University of Vermont Pringle Herbarium GPI Pre-Digitization Curation Workflow]]
|University of Vermont, Pringle Herbarium
|Unknown
|-
|[[Lichen_and_Bryophyte_Data_and_Image_Capture_Workflow | Lichen and Bryophyte Data and Image Capture Workflow]]
|Consortium of North American Lichen Herbaria, Consortium of North American Bryophyte Herbaria
|Unknown
|-
|[[Global_Plants_Initiative_Partner_Handbook | Global Plants Initiative Partner Handbook]]
|Global Plants Initiative, JSTOR
|Global Plants Initiative, JSTOR
|Unknown
|Unknown
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|iDigBio
|iDigBio
|September 2012
|September 2012
|-
|[[Media:Workflows.pdf| Herbarium Workflows: Presentation by Gil Nelson]]
|iDigBio
|September 2012
|-
|[http://zookeys.pensoft.net/articles.php?id=2919 Increasing the efficiency of digitization workflows for herbarium specimens (article in Zookeys)]
|William and Lynda Steere Herbarium, The New York Botanical Garden
|July 2012
|-
|[[Media:Watson_iDigBio-Botany-2014-Workshop.pdf| Herbarium Specimen Imaging: Standards and suggestions: Presentation by Kimberley Watson, NY Botanical Garden]]
|The New York Botanical Garden
|July 2014
|}
|}
== Invertebrate Digitization Workflows and Protocols ==
== Invertebrate Digitization Workflows and Protocols ==
{| class="mw-collapsible mw-collapsed wikitable" style="margin:0px;" width="100%"
!colspan="3"|Invertebrate Digitization Workflows and Protocols
|-
! scope="col"| Title
! scope="col"| Contributing Organization
! scope="col"| Last Updated
|-
|[[Insect_Imaging,_Harvard_University_E-Type_Initiative | Insect Imaging, Harvard University E-Type Initiative]]
|Harvard University Entomology
|Unknown
|-
|[[Field_Museum_of_Natural_History_Moreau_Lab_Imaging_Manual | Field Museum of Natural History Moreau Lab Imaging Manual]]
|Field Museum of Natural History, Moreau Lab
|January 2013
|-
|[[South_Australian_Museum_Terrestrial_Invertebrate_Type_Digitization_Microphotography_Protocol | South Australian Museum Type Digitization Project Imaging Protocol - Microphotography]]
|South Australian Museum
|July 2015
|-
|[[South_Australian_Museum_Terrestrial_Invertebrate_Type_Digitization_Macrophotography_Protocol | South Australian Museum Type Digitization Project Imaging Protocol - Macrophotography]]
|South Australian Museum
|July 2015
|-
|[[South_Australian_Museum_Volunteer_Imaging_Protocol_for_DigiVol | South Australian Museum Volunteer Imaging Protocol for DigiVol]]
|South Australian Museum
|July 2015
|}


== Vertebrate Digitization Workflows and Protocols ==
== Vertebrate Digitization Workflows and Protocols ==


== Palaeontology Digitization Workflows and Protocols ==
== Palaeontology Digitization Workflows and Protocols ==
{| class="mw-collapsible mw-collapsed wikitable" style="margin:0px;" width="100%"
!colspan="3"|Palaeontology Digitization Workflows and Protocols
|-
! scope="col"| Title
! scope="col"| Contributing Organization
! scope="col"| Last Updated
|-
|[[Protocol_for_Imaging_Fossil_Spiders | Paul Selden's workflow for imaging fossil spiders (including hardware and software notes)]]
|Paul Selden, University of Kansas
|September 2013
|}


== Fluid-preserved Specimen Digitization Workflows and Protocols ==
== Fluid-preserved Specimen Digitization Workflows and Protocols ==


== Browse Workflows and Protocols ==
== Browse Workflows and Protocols ==
'''DROID Categories''' <br />
[https://www.idigbio.org/wiki/index.php/Category:Flat_sheets_and_packets Flat sheets and packets] | [https://www.idigbio.org/wiki/index.php/Category:Pinned_specimens_in_trays_and_drawers  Pinned specimens in trays and drawers] | [[3D Objects in Drawers and Boxes]] | [[Things in spirits]]
<br />
<br />
'''Discipline''' <br />
[https://www.idigbio.org/wiki/index.php/Category:Entomology Entomology] | [[Herpetology]] | [https://www.idigbio.org/wiki/index.php/Category:Palaeontology| Palaeontology] | [https://www.idigbio.org/wiki/index.php/Category:Botany Botany] | [[Marine Invertebrates]] | [[Ichthyology]] | [[Mammalogy]] | [[Mineralogy]] | [[Ornithology]]
<br />
<br />
'''Manufacturer''' <br />
[[Leica]] | [https://www.idigbio.org/wiki/index.php/Category:Nikon Nikon] | [https://www.idigbio.org/wiki/index.php/Category:Canon Canon] | [[Olympus]] | [[Satscan]] | [[BK Visionary Digital]]
<br />
<br />
'''Other keywords''' <br />
[https://www.idigbio.org/wiki/index.php/Category:Volunteers Volunteers] | [[Types]] | [[Crowdsourcing]] | [https://www.idigbio.org/wiki/index.php/Category:Global_Plants_Initiative Global Plants Initiative]

Latest revision as of 03:40, 28 July 2015

This wiki gathers useful resources for planning and executing biodiversity digitization projects. This includes general digitization resources, as well as preparation-specific workflows and protocols.

This page serves as a community collaboration collaboration. Contributions of existing workflows and protocols are encouraged, whether such workflows were developed by the contributor or discovered while searching the internet.

Create a free iDigBio account to upload and link your own contributions, or e-mail contributions (links or documents) to Molly Phillips (mphillips@flmnh.ufl.edu) or Gil Nelson (gnelson@bio.fsu.edu) for uploading and linking. An initial set of stubs is provided. Please expand as needed.


General Digitization Resources

Herbarium Digitization Workflows and Protocols

Herbarium Digitization Workflows and Protocols
Title Contributing Organization Last Updated
Florida State Herbarium Imaging Protocol Florida State Herbarium May 2012
Valdosta State University Herbarium Vascular Plant Imaging Protocol Valdosta State University Herbarium Unknown
Valdosta State University Bryophyte Packet Imaging Protocol Valdosta State University Herbarium Unknown
Valdosta State University Image Processing with Nikon Dust Off Process included Valdosta State University Herbarium Unknown
Consortium of Pacific Northwest Herbaria imaging workflows Consortium of Pacific Northwest Herbaria July 2010
STAR Herbarium Digitization Workflow Arkansas State University STAR Herbarium Unknown
Plant Imaging, Harvard University E-Type Initiative Harvard University Entomology Unknown
University of Vermont Pringle Herbarium GPI Pre-Digitization Curation Workflow University of Vermont, Pringle Herbarium Unknown
Lichen and Bryophyte Data and Image Capture Workflow Consortium of North American Lichen Herbaria, Consortium of North American Bryophyte Herbaria Unknown
Global Plants Initiative Partner Handbook Global Plants Initiative, JSTOR Unknown
Developing integrated workflows for the digitisation of herbarium specimens using a modular and scalable approach Royal Botanic Gardens Edinburgh, published in Zookeys July 2012
Herbarium Digitization Tasks and Components Overview: Presentation by Gil Nelson iDigBio September 2012
Herbarium Workflows: Presentation by Gil Nelson iDigBio September 2012
Increasing the efficiency of digitization workflows for herbarium specimens (article in Zookeys) William and Lynda Steere Herbarium, The New York Botanical Garden July 2012
Herbarium Specimen Imaging: Standards and suggestions: Presentation by Kimberley Watson, NY Botanical Garden The New York Botanical Garden July 2014

Invertebrate Digitization Workflows and Protocols

Invertebrate Digitization Workflows and Protocols
Title Contributing Organization Last Updated
Insect Imaging, Harvard University E-Type Initiative Harvard University Entomology Unknown
Field Museum of Natural History Moreau Lab Imaging Manual Field Museum of Natural History, Moreau Lab January 2013
South Australian Museum Type Digitization Project Imaging Protocol - Microphotography South Australian Museum July 2015
South Australian Museum Type Digitization Project Imaging Protocol - Macrophotography South Australian Museum July 2015
South Australian Museum Volunteer Imaging Protocol for DigiVol South Australian Museum July 2015

Vertebrate Digitization Workflows and Protocols

Palaeontology Digitization Workflows and Protocols

Palaeontology Digitization Workflows and Protocols
Title Contributing Organization Last Updated
Paul Selden's workflow for imaging fossil spiders (including hardware and software notes) Paul Selden, University of Kansas September 2013

Fluid-preserved Specimen Digitization Workflows and Protocols

Browse Workflows and Protocols

DROID Categories
Flat sheets and packets | Pinned specimens in trays and drawers | 3D Objects in Drawers and Boxes | Things in spirits

Discipline
Entomology | Herpetology | Palaeontology | Botany | Marine Invertebrates | Ichthyology | Mammalogy | Mineralogy | Ornithology

Manufacturer
Leica | Nikon | Canon | Olympus | Satscan | BK Visionary Digital

Other keywords
Volunteers | Types | Crowdsourcing | Global Plants Initiative

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