fish-tracking

This repository contains a collection of scripts for processing and analyzing fish tracking data. The plan is to move common functions to relevant R-packages, such as the glatos R package and actel.

To add a script yourself (or a set of scripts with a common purpose), create a new directory in the scripts folder. Within this folder, put the R/Rmd script(s) together with a Readme.md file, describing the scripts in the folder. Make sure the following minimal elements are provided:

• Purpose: what?
• Maintainer: who to contact?
• Usage: when/where used?

Apart from individual scripts, you can also enlist to existing implementations/functions/code snippets available in other repositories you've worked in. However, try to focus on small functionalities and processing steps. For examples, instead of referring to the entire analysis of a paper, extract specific steps of the analysis and enlist these here, with the following template:

### Examples functionality

* Purpose: *what?*
* Maintainer: *who to contact?*
* Usage: *when/where used?*
* Link: *link to the specific resource (remark that you can link to specific lines of Github code)*

External code snippets

Leaflet plot of coordinates

• Purpose: Plot x/y coordinates in data.frame on a map, from given projection
• Maintainer: Stijn Van Hoey
• Usage: Used as part of functions to semi-automatically check the projection of given coordinates
• Link: https://github.com/inbo/inbo-rutils/blob/master/gis/guess_projection.R#L60

Eel Scheldt analysis

• Purpose: Eel migration behaviour analysis in the Scheldt Estuary
• Maintainer: Pieterjan Verhelst
• Usage: Processing, explorative and analysis scripts for eel migration in the Scheldt Estuary. Of specific interest to other users are:
  • Tripletmethod
  • Graph visualisation (more a visualisation as an analysis step)
  • Swim speed
• Link: https://github.com/PieterjanVerhelst/eel-scheldt-analysis

Eel Albert Canal analysis

• Purpose: Eel migration behaviour analysis in the Albert Canal
• Maintainer: Pieterjan Verhelst
• Usage: Processing, explorative and analysis scripts for eel migration in the Albert Canal. Of specific interest to other users are:
  • Tripletmethod
  • Graph visualisation (more a visualisation as an analysis step)
  • Swim speed
• Link: https://github.com/PieterjanVerhelst/eel-ak-analysis
• Issue: Script 'Migration_triplets.R' determines downstream migration Specifically, after chronologically ordering the data, a record was considered a migration record if the previous and next detection were at a receiver up- and downstream, respectively, or if the previous two detections were at two subsequent upstream located receivers. To integrate this in a package, it would be interesting to make the code work in the other direction, i.e. upstream migration. See issue https://github.com/PieterjanVerhelst/eel-ak-analysis/issues/6#issuecomment-305783874

...(additional existing functionalities)

Just ideas, no implemention yet

(In this section, provide some ideas, features,... that could eventually be useful to the user community)

Position calculation

• Purpose: Calculate exact fish positions based on triangulation (difference in time of arrival)
• Usage: Habitat preference, habitat use, geographic distribution