/pam_bats

Primary LanguageR

image# Overview

Private repository for the North Sea Lot1 PAM of bats. If you are not Simeon, please don't share.

Meta data

The repository contains three main folders. analysis contains all the data, code and results for the analysis in R. aspot contains all the data, code and results for the analysis in aspot. documents contains all other relevant documents for the project. Only analysis is currently tracked by git.

Meta data per file:

  • pam_bats.Rproj: R project file, if you open this, all relative paths should work

  • README.md: you are reading this file now

  • analysis/code/activity_overview_aspot.R: script to summarise the detections found by animal spot, outputs a csv file for all detections per folder and a csv file with only verified detections of bats per folder

  • analysis/code/activity_overview_csv.R: script to store all information per station in a single csv file; columns contain

    • station: name of the station
    • n_files: number of wav files recorded
    • n_detections: number of detections from animal spot
    • n_bats: number of detections that are varified as bat calls
    • total_duration_h: the total duration (of all wav files combined) in hours
    • fp_rate_1000windows: false positive rate - number of false positives per 1000 windows (animal spot looks at 20 ms windows with 10 ms overlap)
    • fp_rate_h: false positive rate - number of false positives per hour

  • analysis/code/activity_overview_durations.R: script to calculate durations per wav file from the prediction output from animal spot; stores a csv file per folder with four columns:

    • file: name of the original wav file
    • duration: total duration in seconds
    • n_windows: total number of windows that were predicted upon (animal spot looks at 20 ms windows with 10 ms overlap)
    • station: name of the station

  • analysis/code/activity_overview_plot.R: script to plot an overview of the results for all stations; uses input from other activity_overview scripts; outputs single pdf per season

  • analysis/code/activity_overview_read_files.R: script to read summary files and output a summary csv for each summing the number of logs per day; output csv has following columns:

    • DATE: date in following formate - 'yyyy-month_abr-dd', e.g. '2023-Apr-01'
    • n: number of log entries
    • station: station name

  • analysis/code/activity_overview_station.R: script to plot an overview per station; stores single pdf for the chosen station

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