11 - Routes, Tracks en Trips methode om afwezigheid aan te geven naast presentie in iNaturalist

(1-3, Suikeruinie)
Normaal kun je in iNaturalist alleen maar ruwe aanwezigheidsdata aangeven. Absentie kan nu met de "Trip" methode. Het handigst is dit om bij een nachtvlinderval te doen maar je kunt ook aangeven naar welke soorten je gezocht hebt (target list) , in welk gebied je gezocht hebt (Het Roege Bos) en hoe lang je naar de soort op zoek bent geweest (Search interval). Als een soort niet aangegeven is dan was deze specifieke soort afwezig.
Een Trip is een aangepaste journaal post zoals dit stukje tekst ook is, dus met een titel, een beschrijving maar ook een "Zoekgebied" en "Zoek duur" wat berekend wordt uit Start Tijdstip en Stop Tijdstip.
Met een "Trip" kun je extra achtergrond informatie geven over aan maar vooral afwezigheid van soorten. En ook kun je je waarneemfrequentie opgeven wat extra informatie geeft bij het bekijken van de verspreidingsdata. De normale iNaturalist gegevens zijn altijd "aanwezigheids" gegevens.

https://www.inaturalist.org/trips
https://www.inaturalist.org/pages/trips
https://forum.inaturalist.org/t/trips-feature-on-inat/3061
https://forum.inaturalist.org/t/trips-feature-on-inat/3061/12

Voorbeeld

https://www.inaturalist.org/trips/24754-wandeling-langs-het-strand-van-faro
Wat is een goede naam voor een trip?

Trip, Route (monitoringsroute)

Transect (uit waarneming.nl, maar kan deze term niet bewaard worden als er een gpsroute meegeleverd gaat worden?)
Traject
Reis?

Een "Trip" geef extra informatie aan je opgeslagen gegevens:

  1. Waar je naar gezocht hebt (De Doelsoortenlijst)
  2. Waar je gekeken hebt (Het zoek gebied)
  3. Op welk tijdstip je gekeken hebt (Het zoek interval)
    De soorten op je doelsoortenlijst die je waargenomen hebt worden beschouwd als "aanwezig". En soorten die je niet gezien hebt worden als "afwezig" beschouwd.
    Door op het veld 'Tabulate Presence Absence Data From Trips' te klikken wordt een tabel aangemaakt van aan en afwezige soorten van een trip en verwante waarnemingen.
    en Trip is een aangepaste journaal post zoals dit stukje tekst ook is, dus met een titel, een beschrijving maar ook een "Zoekgebied" en "Zoek duur" wat berekend wordt uit Start Tijdstip en Stop Tijdstip.

Trips enable the collection of presence-absence data by adding context to your observations
Why Presence-absence data include information about sampling effort which is useful for scientific analyses like distribution modeling (raw iNaturalist observations are 'presence-only' data).

How A trip adds context to your observations by recording:

  1. What you searched for (target list)
  2. Where you searched (search area)
  3. When you searched (search interval)
    Species on your target list that you were able to observe within the search area and interval are interpreted as presences. While species on your target list that you were unable to observe are interpreted as absences. Click 'Tabulate Presence Absence Data From Trips' to generate a table of presence-absence records for a species from trips and associated observations.

Trips on iNaturalist are extensions of journal posts. Like journal posts they have titles and descriptions where you can describe the trip. They also have data that capture the search interval (e.g. April 18, 2019 4:00 PM - April 18, 2019 4:40 PM) and search area (Latitude, Longitude, Radius). Distance and Number of Observers are entered by the user to capture more detail about earch effort. Duration is calculated automatically from the search interval.
Trips also record information on what you searched for in the form of a target list. A target list is a non-overlapping set of taxa or species that were searched for. Any species covered by the target list (ie a species on the list or a descendant of a taxon on the list) that is not observed within the radius and duration of this trip is interpreted as an absence. Blue circles indicate the existence of observations of taxa covered by the target list made within within the search area and interval. Note: the target list displayed here has cleans up overlapping taxa. For example, if you entered a genus and a species within it on your target list, only the genus is displayed. Also, we recommend that you don't use trips with obscured obs (ie observations you obscure or observations of taxa automatically obscured) as efforts to mask true locations may lead to misleading results.

How to tabulate data from a trip

To generate presence absence data from a trip, first enter a single species like Western Fence Lizard (Sceloporus occidentalis) to filter trips relevant to that species. You can also optionally filter trips by place, month, or year
The resulting table of trips will include an occupancy column for the species populated with 1s (presences) or 0s (absences) accordingly
You can also access this table in a machine readable JSON format

RoadMap, ReleaseNotes

https://github.com/inaturalist/inaturalistios 1
https://github.com/inaturalist/iNaturalistAndroid
https://github.com/inaturalist/INaturalistIOS/wiki/Roadmap
https://www.inaturalist.org/journal/optilete/archives/2019/01
https://www.inaturalist.org/trips
https://www.inaturalist.org/pages/trips

oes your camera record accuracy? If it does, you may need to send an example image or two to the staff at help@inaturalist.org. (the forum will modify the original image) You’re right that it would be a bug - this feature was added in 2018. https://github.com/inaturalist/inaturalist/commit/6633cf76cd0baca1b809b6cdb8d12aa23df067f9 1
https://forum.inaturalist.org/t/gps-accuracy-not-captured-when-uploading-photos-taken-with-a-camera-with-a-built-in-gps/18861/4

Trips enable the collection of presence-absence data by adding context to your observations

Why Presence-absence data include information about sampling effort which is useful for scientific analyses like distribution modeling (raw iNaturalist observations are 'presence-only' data).

How A trip adds context to your observations by recording:

  • What you searched for (target list)
  • Where you searched (search area)
  • When you searched (search interval)

Species on your target list that you were able to observe within the search area and interval are interpreted as presences. While species on your target list that you were unable to observe are interpreted as absences. Click 'Tabulate Presence Absence Data From Trips' to generate a table of presence-absence records for a species from trips and associated observations.

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How to find a trip



  • You can search for trips relevant to a taxon (ie trips with target lists covering the taxon), place (ie trips with latitudes and longitudes within the place), and month or year (ie trips with start dates on that month or year)


  • To view a single trip you can click on the trip id


  • You can generate a table of presence-absence records for a species from trips and associated observations


  • And you can make trips of your own

How to view a trip



  • Trips on iNaturalist are extensions of journal posts. Like journal posts they have titles and descriptions where you can describe the trip. They also have data that capture the search interval (e.g. April 18, 2019 4:00 PM - April 18, 2019 4:40 PM) and search area (Latitude, Longitude, Radius). Distance and Number of Observers are entered by the user to capture more detail about earch effort. Duration is calculated automatically from the search interval.


  • Trips also record information on what you searched for in the form of a target list. A target list is a non-overlapping set of taxa or species that were searched for. Any species covered by the target list (ie a species on the list or a descendant of a taxon on the list) that is not observed within the radius and duration of this trip is interpreted as an absence. Blue circles indicate the existence of observations of taxa covered by the target list made within within the search area and interval. Note: the target list displayed here has cleans up overlapping taxa. For example, if you entered a genus and a species within it on your target list, only the genus is displayed. Also, we recommend that you don't use trips with obscured obs (ie observations you obscure or observations of taxa automatically obscured) as efforts to mask true locations may lead to misleading results.

How to create a trip



  • Like journal posts, your trip must have a Title and can have a Description to give some context.


  • You can optionally record the distance you traveled and the number of observes to better describe your search effort


  • The time interval during which you were searching is defined by start and end times.


  • The area within which you were searching is defined by a circle with a center (latitude and longitude) and a radius in meters. You can create this circle by centering it on an iNaturalist place (e.g. Ring Mountain Open Space Preserve), an address, by positioning it manually on the map, or by entering the latitude, longitude and radius directly.



  • What you were searching for is defined by your target list. These can be species or coarser groups of species. They will be interpreted as a non-overlapping set made up of the coarsest taxa on your list. Its important not to put anything on your list that you did not attempt to detect. If you have a coarse grouping on your list like Lady Beetles, this means that you attempted to detect and observe each species in this group at least once.


  • You can populate your target list by selecting one of the high level groupings on the left


  • Or by manually searching for a species or grouping


  • When you're done, save your trip to finish later, or publish it to share it publically.

How to tabulate data from a trip



  • To generate presence absence data from a trip, first enter a single species like Western Fence Lizard (Sceloporus occidentalis) to filter trips relevant to that species. You can also optionally filter trips by place, month, or year


  • The resulting table of trips will include an occupancy column for the species populated with 1s (presences) or 0s (absences) accordingly


  • You can also access this table in a machine readable JSON format

11 - Routes, Tracks en Trips methode om afwezigheid aan te geven naast presentie in iNaturalist
(1-3, observado)
https://forum.inaturalist.org/t/trips-feature-on-inat/3061/10
https://www.inaturalist.org/trips/24446-ubif-lobos-creek-oak-woodland-plants-1-23-2019 3

Posted on January 03, 2021 11:48 AM by ahospers ahospers

Comments

https://forum.inaturalist.org/t/trips-feature-on-inat/3061/10
The basic back end of trips was added to iNat back in 2014 to support this app 8 was built by a third party developer on the iNat back end with a very small grant from BHL. The basic idea was for the app to show you nearby historic GBIF points, for you to try to relocate them and record presence with a new iNat obs, and to store absences in this trips structure. The app never really worked either because it didn’t have the funding to properly build/support it and/or it was just poorly conceived. The app is not maintained and no longer works but I think all of the older trips cmcheatle mentioned aside from a few us on the team made for testing are from this app. The website also had the basic web UI for trips stubbed out since 2014 but because the tool was only there to support the biocaching app, we didn’t put too much thought into it being user facing.

This year, our Citizen Science colleagues at the California Academy of Sciences has a ‘UBIF’ collaboration with land managers that are interested in developing this work a bit further. Their interest is in the presence/absence of surrogate species to better understand how their managing habitat - e.g. whether this habitat in the San Francisco Presidio has California Man-root which could be a surrogate for the ecosystem they’re trying to manage for https://www.inaturalist.org/trips/24446-ubif-lobos-creek-oak-woodland-plants-1-23-2019 3

Internally, we’re also interested in better understanding/modeling species distributions on the site to improve iNaturalist as both a species identification tool and conservation tool (understanding species distributions is important for both of this). I don’t think we know exactly where we’re going with this yet but we’ve been doing a little bit of work modeling distributions from iNat data and validating it with eBird presence/absence data and its possible that having access to presence/absence data for non-bird data may help validate and improve these models. Here’s a paper I like from a colleague at Berkeley
https://besjournals.onlinelibrary.wiley.com/doi/10.1111/2041-210X.12242 3
and some of the cool work folks are doing at eBird
https://ebird.org/science/status-and-trends/ 1
if you want to get a sense for the general distribution modeling arena we’re exploring

Back to the trips feature - ( a ) the UBIF collaboration, ( b ) our interest in understanding/modeling/validating distributions, and ( c ) vague but persistent interest in this area fro the iNat community were behind the recent updates to the trips feature - which mainly entailed revamping what was there in 2014, creating the infrastructure for rendering out a presence/absence table from trips and accompanying observations https://www.inaturalist.org/trips/tabulate?taxon_id]=36204 1, better documentation, and some rounds of user testing with the UBIF collaborators. We didn’t publicize the updates because (a) its been a busy time of year with Spring, CNC, Seek updates, and other things we’ve been involved in and (b) we’re still trying to get a handle on use-cases for this kind tool and how it does or does not fit into the iNat universe.

An important thing to note about trips which is relevant to some of the forum threads, is that we’re generating presence absence data from plain ol’ observations and the context that trips provide around them rather than collecting a whole new parallel type of presence/absence data. This is appealing because it means we can explore the utility of this kind of data and data use without building and having to maintain a parallel system more or less unrelated to the core of iNat (obs and identifications) - think Guides which is a good example of what we don’t want to repeat. Its also cool because from a presence absence standpoint you can exactly mimic eBird checklists with trips - its not the most pleasant user experience to do so, but its possible to store and render out the exact same data formats. Notice I said presence/absence not abundance as a major caveat is that eBird checklists accomodate counts and trips accomodate presence/absence only.
https://forum.inaturalist.org/t/trips-feature-on-inat/3061/10

Posted by ahospers over 2 years ago (Flag)

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