GeoPressureR includes the shiny appGeoPressureViz which helps you visualize the overall trajectory of the bird as well as each step-by-step move. Note that this is a visualization tool only and as such, it cannot be used to make changes to your data. It offers a useful tool to label your tag and provides a convenient platform to discuss the overall trajectory with collaborators.
Screenshot of theGeoPressureViz demo showing the estimated position at one stationary period of the Great Reed Warbler (18LX), based on (1) the pressure and light match (map colorscale and timeseries) and (2) potential flight distances from the previous and next stationary periods (circles).
Map: this displays the trajectory of the bird. The size of the circles indicates the duration of the stopover (hover over them to get more info).
Bottom panel: this shows the pressurepath of the trajectory which must be computed beforehand. The grey line is the raw data (pressurepath$pressure_tag), the black dots are pressure points labelled as outliers, and colored lines are the normalized pressure at the best match location (i.e., pressurepath$surface_pressure_norm). The color matches the circles on the map.
Side panel: this provides key information and tools to navigate the app.
The “Minimum duration” input allows to filter out short stationary periods on the map, similarly to include_min_duration in tag_set_map().
Toggle the “Full Track” button to move to the stationary period view.
Navigate from one stationary period to the next using the previous/next button or dropdown list. The pressure timeseries will update to zoom exactly on this stationary period. The color of the timeseries informs you on the current stationary period shown on the map, the two others begin the previous and next one.
The circles indicates the distance to and from the previous and next stationary period location based on the speed slider on the side panel (default is 40km/h).
Depending on which maps are available, you can choose to display the probability map of pressure tag$map_pressure, light tag$map_light, their product, or the marginal.
Because some locations of the most likely path can be completely off, it might be helpful to temporarily change their location to check the coherence of distance with the next/previous stationary period. Click on “Start Editing” to do so Every time you click on the map, it will update the position. Once you’re happy with the position, you can click on the button again to disable the editing mode.
Finally, you can also check the pressure timeseries with the new positions using the button “Query pressure”. This runs geopressure_timeseries() in the background, so it will be slow (especially for long stationary periods).
7.2 Run GeoPressureViz
The visualization can be started with your track using geopressureviz().
Screenshot of the GeoPressureViz demo showing the estimated position at one stationary period of the Great Reed Warbler (18LX), based on (1) the pressure and light match (map colorscale and timeseries) and (2) potential flight distances from the previous and next stationary periods (circles).