raorben / seabird_tracking_atlas Goto Github PK

Shortterm TODOs

##CAH:

• .Rmd file: by species for track filtering
• .Rmd file: by species for clip polygon + maps
• bringing in new data: new PTT data is in same general format, GPS data is different -> making a simplified data format
• clean metadata and figure out which columns we need
• how to add new metadata
• look at Movebank for formatting and metadata - use WEGU Ornitella tags as an example
• how are flight speeds calculated for new species?

##RAO:

• check performance of trackfilter with GPS data

• adapt codes for CPF trips

• edit time segmentation grouping to be general and easily adapted to birds and CPF trips

• format datetime in track file so that the format carries through the codes

• EEZtoPoly.R : build OR poly from EEZ, remove internal island polygons

• EEZtoPoly.R : use OR/WestCoast EEZ in workflow

• how to scale densities and what is the zero threshold?

• make raster with the number of individuals per cell <- I did this but it does look useful

• PLOTS: add a function to plot tracks and the polygon together

• add names to lists that are returned in functions

• why do individuals add to 1.11e-11? -> I think it had to do something with the grid cell since multipling the uds by 3000^2 made individual sums = 1 or 0.9999; this was added to the segmentation codes

• PLOTS: clip brownian bridge raster to clipper used to select tracks

• modify codes to deal with central place foraging tracks - each trip as a segment?

Longterm TODOs

• RAO: Use a habitat grid to omit areas on land from the Brownian Bridge calculations
• RAO: move polygon clipping into sf functions
• CAH: add some info to QC plots for individual brownian bridge segments (https://www.r-spatial.org/r/2016/03/08/plotting-spatial-grids.html)
• CAH: export tracking data, individual rasters and combined rasters to .asc
• CAH: make a script to calculate flight speeds from Table 2 of Spear and Ainley 1997