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CornellLabofOrnithology / auk

Working with eBird data in R
https://CornellLabofOrnithology.github.io/auk/
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Lookup table for species abbreviations in filenames #65

Closed trashbirdecology closed 2 years ago

trashbirdecology commented 2 years ago

Does your group have a lookup table they would be willing to share for easily indexing ebird filenames?

For example, yellow warbler abbreviation in the EBD is "yelwar." As far as I am aware, this does not match any other conventional abbreviations -- if it does please point me there!

Otherwise, could yall post/link/include a lookup table?

Thanks!

eliotmiller commented 2 years ago

What you're looking for can be found here: https://www.birds.cornell.edu/clementschecklist/download/

eliotmiller commented 2 years ago

See here for more details https://github.com/CornellLabofOrnithology/auk/issues/64

OrinRobinson commented 2 years ago

You can get a table of the names and codes from the ebirdst package.

The command ebirdst_runs gives you a table of all the species and their codes.

Run this:

library(ebirdst)

species <- ebirdst_runs

View(species)

On Tue, Apr 12, 2022 at 9:37 AM Jessica Burnett @.***> wrote:

Does your group have a lookup table they would be willing to share for easily indexing ebird filenames?

For example, yellow warbler abbreviation in the EBD is "yelwar." As far as I am aware, this does not match any other conventional abbreviations -- if it does please point me there!

Otherwise, could yall post/link/include a lookup table?

Thanks!

— Reply to this email directly, view it on GitHub https://github.com/CornellLabofOrnithology/auk/issues/65, or unsubscribe https://github.com/notifications/unsubscribe-auth/AGPUMOQG67VZQSVGSUL4KH3VEV4DBANCNFSM5THLGIOA . You are receiving this because you are subscribed to this thread.Message ID: @.***>

-- Orin Robinson

Research Associate Information Science | Conservation Science Cornell Lab of Ornithology Cornell University

@.*** Website: http://orinjrobinsonjr1.wixsite.com/home ResearchGate Profile: https://www.researchgate.net/profile/Orin_Robinson

mstrimas commented 2 years ago

The method mentioned above by Orin applies to eBird Status & Trends species. If you want the full list of codes for any eBird taxon, take a look at the species_code column in auk::ebird_taxonomy.

trashbirdecology commented 2 years ago

Brilliant, thanks Orin

__

Jessica L. Burnett (she/her)

Mendenhall Postdoctoral Fellow & Research Ecologist

US Geological Survey Science Analytics and Synthesis https://www.usgs.gov/core-science-systems/science-analytics-and-synthesis

Github http://github.com/trashbirdecology

ORCID: 0000-0002-0896-5099 https://orcid.org/0000-0002-0896-5099 __

Join the Community for Data Integration https://www.usgs.gov/centers/cdi! All welcome. It's cool.

On Tue, Apr 12, 2022 at 8:11 AM Orin Robinson @.***> wrote:

You can get a table of the names and codes from the ebirdst package.

The command ebirdst_runs gives you a table of all the species and their codes.

Run this:

library(ebirdst)

species <- ebirdst_runs

View(species)

On Tue, Apr 12, 2022 at 9:37 AM Jessica Burnett @.***> wrote:

Does your group have a lookup table they would be willing to share for easily indexing ebird filenames?

For example, yellow warbler abbreviation in the EBD is "yelwar." As far as I am aware, this does not match any other conventional abbreviations -- if it does please point me there!

Otherwise, could yall post/link/include a lookup table?

Thanks!

— Reply to this email directly, view it on GitHub https://github.com/CornellLabofOrnithology/auk/issues/65, or unsubscribe < https://github.com/notifications/unsubscribe-auth/AGPUMOQG67VZQSVGSUL4KH3VEV4DBANCNFSM5THLGIOA

. You are receiving this because you are subscribed to this thread.Message ID: @.***>

-- Orin Robinson

Research Associate Information Science | Conservation Science Cornell Lab of Ornithology Cornell University

@.*** Website: http://orinjrobinsonjr1.wixsite.com/home ResearchGate Profile: https://www.researchgate.net/profile/Orin_Robinson

— Reply to this email directly, view it on GitHub https://github.com/CornellLabofOrnithology/auk/issues/65#issuecomment-1096782749, or unsubscribe https://github.com/notifications/unsubscribe-auth/ACL2TNOFTQUOKLPHUL77523VEWACFANCNFSM5THLGIOA . You are receiving this because you authored the thread.Message ID: @.***>

trashbirdecology commented 2 years ago

ahh thanks

__

Jessica L. Burnett (she/her)

Mendenhall Postdoctoral Fellow & Research Ecologist

US Geological Survey Science Analytics and Synthesis https://www.usgs.gov/core-science-systems/science-analytics-and-synthesis

Github http://github.com/trashbirdecology

ORCID: 0000-0002-0896-5099 https://orcid.org/0000-0002-0896-5099 __

Join the Community for Data Integration https://www.usgs.gov/centers/cdi! All welcome. It's cool.

On Tue, Apr 12, 2022 at 12:23 PM Matt Strimas-Mackey < @.***> wrote:

The method mentioned above by Orin applies to eBird Status & Trends species. If you want the full list of codes for any eBird taxon, take a look at the species_code column in auk::ebird_taxonomy.

— Reply to this email directly, view it on GitHub https://github.com/CornellLabofOrnithology/auk/issues/65#issuecomment-1097047411, or unsubscribe https://github.com/notifications/unsubscribe-auth/ACL2TNPAISA73OXHDL66H4DVEW5QLANCNFSM5THLGIOA . You are receiving this because you authored the thread.Message ID: @.***>