Landscaping in fire-prone neighborhoods: laboratory flammability testing in response to community survey responses
This repository is meant for the storage and sharing of data, scripts, figures, and mixed effects model result tables related to the paper titled Landscaping in fire-prone neighborhoods: laboratory flammability testing in response to community survey responses by Kristina Fauss, Joe Celebrezze, Indra Boving, Robert Fitch, Rachel Dye, and Max Moritz which showcases a partipatory research approach to laboratory flammability testing and recommends fire-safe plants for landscaping in the wildland-urban-interface (WUI) in Santa Barbara county and surrounding regions. Otherwise, the analyses and data wrangling presented here could be used as a framework for future studies investigating similar questions such as the ongoing work in the Moritz Fire Lab at UCSB.
- Mixed Effects Model Selection Tables
The data folder consists of two subfolders, raw-data and processed-data. For more information regarding specific column names, see metadata
The raw-data folder consists of four subfolders:
flamm: includes the raw data for laboratory flammability testing, burn_samples_flamm.csv
plant-traits: includes multiple datasets which describe various plant traits as shown below
ARTCAL_LMA.csv: data necessary to calculate the average leaf mass per area for Artemesia californica
cup_weights.csv: the weights of the tins used for the LFM measurements and corresponding numbers
leaf_area_flamm.csv: raw output from scanning leaves
leaf_data_flamm.csv: leaf thickness and necessary masses to calculate LFM
stem_data_flamm.csv: necessary raw data to calculate stem-specific plant traits
stemleaf_massratio_flamm.csv: necessary data to calculate stem-to-mass and leaf-to-mass ratios
survey
survey_addresses.csv: addresses of survey respondents
survey_data.csv: compilation of all necessary data to analyze survey responses
thermocouplers: raw time series data for temperature and heat flux from the datalogger; labelled with date (YYYYMMDD)
The processed-data folder consists of datasets manipulated/wrangled at some stage from the raw-data, primarily in data wrangling scripts.
The processed-data folder consists of datasets manipulated/wrangled at some stage from the raw-data. This folder primarily includes datasets of different iterations that include data in which both methods were used simultaneously. See the metadata for more information. Otherwise, see 1.data_wrangling_methods.Rmd (for the combined datasets as described in the metadata or data_wrangling_SEKI.Rmd (in extra-analyses; for seki_flam_data_all.csv) for details on data wrangling.
The scripts folder includes scripts for all of the code we used to wrangle data, complete analyses, and design tables and figures for the main body of the paper, the supplementary index, and for exploratory analyses (which are primarily located in the extra-analyses folder inside of the scripts folder). The scripts are numbered in a logical order which follows the order presented in the paper. Further details regarding each of the 6 main scripts follow:
1.data_wrangling_methods.Rmd: this takes the datasets from the raw-data folder and cleans them up so that they could be combined into one main dataset for further analyses. It removes species with less than 6 ignitions for either of the methods (leaving Adenostoma fasciculatum, Ceanothus megacarpus, Arctostaphylos patula, and Ceanothus cordulatus), removes rows with NA values in certain variables, and moves any instances of manual ignitions (i.e., after 7 minutes elapsed, we manually ignited the samples by lifting them into the propane-fueled pilot flame) into a specific dataset, otherwise removing them from the bulk of datasets.
2.literature_review.Rmd: this involves all analyses and figures relating to the literature review. This includes the map labelled Figure 2a in the paper. IMPORTANT NOTE: For this map, we used global ignitions data readily available from the Global Fire Atlas through ORNL DAAC, Distributed Active Archive Center for Biogeochemical Dynamics (https://daac.ornl.gov/cgi-bin/dsviewer.pl?ds_id=1642). This data was not stored in our GitHub due to the large file size. Due to this, data must be locally requested from the website and then proper urls must be manually inputted into the code by whoever may be running the script for it to run properly.
3.1.water_content_vs_flam.Rmd: this involves code necessary for figures that compare water content (or dry weight) to flammability metrics and accompanying mixed effects model selections and statistical tests. It includes a wide variety of iterations to look at the data including iterations not included in the paper or supplementary materials.
3.2.mixed_effects_model_selections.Rmd: this involves the primary mixed effects model selection discussed in the paper and accompanying mixed effects model summary tables.
4.interspecific_differences.Rmd: this focuses on the section of the supplementary index concerned with interspecific differences and involves many iterations of similar analyses (a lot of which were not utilized); otherwise, it contains statistical tests, visualizations and summary tables that relate to interspecific differences.
5.PCA.Rmd: this involves all code necessary for the principal component analyses included in the paper.
extra-analyses: as previously alluded to, any exploratory analyses or scripts which were improved upon or elaborated on by the main 6 scripts described above were placed in the extra-analyses folder. This folder includes analyses not mentioned above such as variance decomposition, classification and regression trees, segmented regressions, using the flammability index developed in Essaghi et. al. 2017, and an investigation into manual ignitions (mostly for Ceanothus cordulataus). Importantly, it also contains the data_wrangling_SEKI.Rmd file dedicated to wrangling the SEKI.flammability.csv into a more usable format in seki_flam_data_all.csv.
The figures folder includes all figures included in the main text of the paper and the supplementary index, as well as figures we did not end up presenting (mostly placed in the extra-figures folder). All main and supplementary figures were labelled appropriately with FigX. or FigSX. preceding the description of the figure. Note that Fig1.methods.images.png is not made in any script, but instead consists of two pictures taken by Indra Boving and Joe Celebrezze.
These are placed in the mem-model-selection folder and informed our conclusions regarding this analysis.
This is located in METADATA.Rmd and METADATA.html (made from knitting METADATA.Rmd).
Joe Celebrezze*: [email protected]
Indra Boving: [email protected]
*correspondence
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