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A Platform for Georeferencing Natural History Collection Data
Nelson E. RiosYale University Peabody Museum
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What is Georeferencingpushepatapa creek, trib. to pearl river, 7.8
miles north of bogalusa at hwy 21; Washington; LA; USA
latitude: 30.88797longitude: -89.83601
uncertainty radius: 48muncertainty polygon: 30.88823,-89.83641, 30.88815,-89.83634,
30.88808,-89.83622…
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The Problem
3 billion specimens with ½ billion collecting events
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Software & services for georeferencing of natural history collections data
automated georeferencing
verification & correction
batch processinggeographic visualization
uncertainty determinationcollaborative georeferencing
interoperability
multi-lingual
kml export
google, bing, openstreet, wms
soap & rest api
training
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Notable Milestones• 2003 Initial release as desktop application• 2006 Global scope• 2008 Multilingual capabilities, CoGe platform• 2009 Web Services & third-party integration • 2010 Web Clients & third-party integration• 2012-2015 FishNet - CoGe improvements• 2016 SERNEC - Symbiota CoGe communication
protocol• 2017 Historical mapping• 2018 Move to geo-locate.org• 2019 Integration with EMu• 20XX Decentralized Data Annotation??
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Typical GEOLocate W
orkflow
pushepatapa creek, trib. to pearl river, 7.8 miles north of bogalusa at hwy 21; Washington; LA; USA
Georeferencing Algorithm
Visualize, verify & adjust output coordinates & uncertainties
Data Entry &Preparation
AutomatedProcessing
ManualVerification
latitude: 30.88797longitude: -89.83601
uncertainty radius: 48m
uncertainty polygon: 30.88823,-89.83641, 30.88815,-89.83634, 30.88808,-89.83622…
1
2
3
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Processes
Collecting Event Textual Data
Candidate Spatial Representations
Accepted Spatial Data
Collection Management System
Collection Management System
Verification and refinement
NLP & Geospatial Analysis
Repatriation
Data preparation
(Time vs Quality)
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Interactions
Web ServicesGeospatial Descriptors (Latitude, Longitude, Uncertainty, Polygons etc)
Basic Client Batch Client Collaborative Client
Collaborative Data Portal
Embeddable Client
Third Party Clients (Emu)
Third Party Clients CMD Line Client Clients
Third Party Clients (Symbiota)
Locality Records
Specimen Records
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Local Interfaces
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Named Place
7 miles N
orth of
Named Place
7 miles N
orth of
Creek at Hwy 1
Match Water Body Detect Hwy/River Crossing
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Point
Point & Radius
Point, Radius & Polygon
Moving Beyond Points
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Generating Polygons:
15 mi N of Lawrence, KSdisplaced polygon
15 mi N of Lawrence, KSno displacementLawrence, KS
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Geospatial Representation - Polygons
POLYGON ((-94.480762 36.174037, -94.451064 36.205624, -94.427375 36.172374, -94.480762 36.174037))
36.174037,-94.480762,36.205624,-94.451064,36.172374,-94.427375,36.174037,-94.480762
36.174037-94.480762
36.205624-94.451064
36.172374-94.427375
GLC Format
WKT Format
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Visualization: Base Layers
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Application Services: Web Client APIs
• URL API for user input & lightweight web clients
• Lightweight client, specifically designed for embedding into other web applications.
• Two way communication between web sites uses JavaScript postMessage() • Compatible with all modern browsers:
IE 8.0+Firefox 3.0+Safari 4.0+Chrome 1.0+Opera 9.5+
EMu (desktop)Specify (web)
Symbiota (web)Arctos (web)
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Speeding things up
• Specimen records• Collecting events• Grouped collecting events• Data prioritization• Locality services pre-processing• Expert georeferencers• High-throughput (first pass georeferencing)
• Processes for automated QA/QC• Collaborative georeferencing
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locality required the locality description country required state optional will return zero results if country is USA and state is not provided county optional hwyX optional enable looking for intersections between roads and water bodies. values: [true], false enableH2O optional snap points to water bodies if found in locality.
values: [true], false doUncert optional calculate uncertainty radius.
values: [true], false doPoly optional generate polygons for known places.
values: true, [false] displacePoly optional displaces polygons in line with locality description. doPoly must be enabled, otherwise ignored.
values: true, [false] languageKey optional selected language. 0=English.
values: [0],1,2,3,4 fmt optional output format.
values: [json], geojson callback optional wraps response in a callback
Examples: http://www.geo-locate.org/webservices/geolocatesvcv2/glcwrap.aspx?Country= USA&Locality=bogalusa&state=la http://www.geo-locate.org/webservices/geolocatesvcv2/glcwrap.aspx?Country=USA&Locality=bogalusa&state=la&dopoly=true&fmt=geojson
Comments: Currently errors are returned as plain text without any JSON formatting. This will be updated in a future update. For example (when not enough data provided): http://www.geo-locate.org/webservices/geolocatesvcv2/glcwrap.aspx?Country=USA
url: http://www.geo-locate.org/webservices/geolocatesvcv2/glcwrap.aspx?
RESTful Web Services
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High-throughput (“first-pass” georeferencing)• Access geolocate webservices to batch process large datasets
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Interoperability & Collaborative
Georeferencing
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Collaborative Georeferencing Real-Time Repatriation