Integrating local ecological knowledge, ecological monitoring, and computer simulation to evaluate conservation outcomes

Repository overview:

• README.md

• R scripts:

  • Prefix "analysis_01..." indicates scripts used for analyses and suggested running order.
  • Prefix "plotting_01..." indicates scripts used to generate figures and suggested running order.

• results: stores results from R scripts (multiply imputed datasets, model objects, figures, etc.)

• consLettersUtils: a package that contains functions and ggplot themes. It can be installed with devtools:

    devtools::install('/path/to/pkg')
  

• License

Workflow

1. Analysis: run "analysis" scripts using suggested numerical running order from filename prefix.
2. Plotting: run "plotting" scripts using suggested numerical running order from filename prefix.

Data

This folder contains all standardized CPUE and morphometric data used in analyses.

• Raw LEK data is available at https://github.com/earlycapistran/PeerJ

Unprocessed data

This folder contains processed LEK and monitoring data. These datasets were used for all analyses.

• cpue_data.csv: Mean annual CPUE values (LEK and Monitoring) standardized to one 100m net with 12hr soak time.

• morphometric_data.csv: Includes year, weight (Kg), straight carapace length (SCL), curved carapace length (CCL), and indicators for adult and juvenile age groups.

Note: Unpublished raw monitoring data is not included. Please contact the monitoring organizations if you are interested in their data (see Data sources below).

Data sources

LEK:

• All data (1952-1983): Early-Capistrán, M.-M., Solana-Arellano, E., Abreu-Grobois, F. A., Narchi, N. E., Garibay-Melo, G., Seminoff, J. A., Koch, V., & Saenz-Arroyo, A. (2020). Quantifying local ecological knowledge to model historical abundance of long-lived, heavily-exploited fauna. PeerJ, 8, e9494. https://doi.org/10.7717/peerj.9494

• Full data and code are available at https://github.com/earlycapistran/PeerJ

Monitoring (CPUE):

• 1995-2003: Seminoff, J. A., Jones, T. T., Resendiz, A., Nichols, W. J., & Chaloupka, M. Y. (2003). Monitoring green turtles (Chelonia mydas) at a coastal foraging area in Baja California, Mexico: Multiple indices to describe population status. Journal of the Marine Biological Association of the UK, 83(06), 1355-1362.

• 2004-2005: Seminoff, J.A. (2005). NOAA. Unpublished raw data.

• 2003-2018: Comisión Nacional de Áreas Naturales Protegidas, A.P.F.F. Islas del Golfo de California & Grupo Tortuguero de Bahía de los Ángeles (2018). Unpublished raw data.

Monitoring (morphometric data):

• 1995-2005: Seminoff, J.A. (2005). NOAA. Unpublished raw data.

• 2003-2018: Comisión Nacional de Áreas Naturales Protegidas, A.P.F.F. Islas del Golfo de California & Grupo Tortuguero de Bahía de los Ángeles (2018). Unpublished raw data.

Contact

• Michelle María Early Capistrán, earlycapistran@gmail.com

Citation

Data: Early-Capistrán, M.M., Seminoff, J.A., Comisión Nacional de Áreas Naturales Protegidas, Grupo Tortuguero de Bahía de los Ángeles (2022) Data from: "Integrating local ecological knowledge, ecological monitoring, and computer simulation to evaluate conservation outcomes." GitHub. https://github.com/earlycapistran/miceNls.

Code: Early-Capistrán, M.M. (2022) Code from: "Integrating local ecological knowledge, ecological monitoring, and computer simulation to evaluate conservation outcomes." GitHub. https://github.com/earlycapistran/miceNls