fire_severity_drone
Antonio J Perez-Luque
2021-07-22
Last updated: 2021-09-22
Checks: 7 0
Knit directory: fire_alcontar/
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- Get severity category for each of the plots
library(tidyverse)
library(sf)
library(raster)
library(here)
library(DiagrammeR)
library(exactextractr)
library(DT)
library(ggpubr)- Workflow
- Georreferenced map
dEGI <- raster(here::here("data/fire_severity_img/referenced/dEGI_3colors.tif"))
parcelas <- st_read(dsn = "/Users/ajpelu/Google Drive/my_repos/serpam/ndvi_alcontar/data/spatial/parcelas/GEO_PARCELAS.shp",
quiet = TRUE)
p <- parcelas %>%
filter(stringr::str_detect(NOMBRE, "AL_P_|AL_NP"))- Fire severity: values 0 = high; values 2 = medium; values 1 = low;
df <- exact_extract(dEGI, p, include_cols = "NOMBRE",
force_df=TRUE, progress = FALSE) %>%
bind_rows() %>%
mutate(fire_sevClass = case_when(
value == 0 ~ "high",
value == 1 ~ "low",
value == 2 ~ "medium"
))
severity <- df %>% group_by(NOMBRE, fire_sevClass) %>% count() %>%
pivot_wider(names_from = fire_sevClass, values_from = n) %>%
rowwise() %>%
mutate(n = sum(high, low, medium)) %>%
mutate(high.pct = high/n*100,
low.pct = low/n*100,
medium.pct = medium/n*100) %>%
mutate(treatment = case_when(
str_detect(NOMBRE, "AL_NP") ~ "NonGrazing",
TRUE ~ "Grazing"
))severity %>% dplyr::select(NOMBRE,
high.pct, medium.pct, low.pct) %>%
datatable() %>%
formatRound(columns=c("high.pct", "medium.pct", "low.pct"), digits=2)g <- ggscatter(severity, x="high.pct", y="medium.pct",
color = "treatment",
ellipse = TRUE,
xlab = "% pixels High severity",
ylab = "% pixels Medium severity")
ggpar(g, xlim=c(0,100), ylim = c(0,100))
| Version | Author | Date |
|---|---|---|
| f656a44 | Antonio J Perez-Luque | 2021-07-22 |
At the end, the classification indicates:
- Non Grazing parcelas as High-Severity
- Grazing parcelas as Medium-Severity
sessionInfo()R version 4.0.2 (2020-06-22)
Platform: x86_64-apple-darwin17.0 (64-bit)
Running under: macOS Catalina 10.15.3
Matrix products: default
BLAS: /Library/Frameworks/R.framework/Versions/4.0/Resources/lib/libRblas.dylib
LAPACK: /Library/Frameworks/R.framework/Versions/4.0/Resources/lib/libRlapack.dylib
locale:
[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] ggpubr_0.4.0 DT_0.17 exactextractr_0.5.1
[4] DiagrammeR_1.0.6.1 here_1.0.1 raster_3.4-5
[7] sp_1.4-5 sf_1.0-2 forcats_0.5.1
[10] stringr_1.4.0 dplyr_1.0.6 purrr_0.3.4
[13] readr_1.4.0 tidyr_1.1.3 tibble_3.1.2
[16] ggplot2_3.3.5 tidyverse_1.3.1 workflowr_1.6.2
loaded via a namespace (and not attached):
[1] fs_1.5.0 lubridate_1.7.10 RColorBrewer_1.1-2 httr_1.4.2
[5] rprojroot_2.0.2 tools_4.0.2 backports_1.2.1 bslib_0.2.4
[9] rgdal_1.5-23 utf8_1.1.4 R6_2.5.0 KernSmooth_2.23-18
[13] DBI_1.1.1 colorspace_2.0-0 withr_2.4.1 tidyselect_1.1.1
[17] curl_4.3 compiler_4.0.2 git2r_0.28.0 cli_2.5.0
[21] rvest_1.0.0 xml2_1.3.2 labeling_0.4.2 sass_0.3.1
[25] scales_1.1.1 classInt_0.4-3 proxy_0.4-26 digest_0.6.27
[29] foreign_0.8-81 rmarkdown_2.8 rio_0.5.16 pkgconfig_2.0.3
[33] htmltools_0.5.2 highr_0.8 dbplyr_2.1.1 fastmap_1.1.0
[37] htmlwidgets_1.5.3 rlang_0.4.10 readxl_1.3.1 rstudioapi_0.13
[41] farver_2.0.3 visNetwork_2.0.9 jquerylib_0.1.3 generics_0.1.0
[45] jsonlite_1.7.2 crosstalk_1.1.1 zip_2.1.1 car_3.0-10
[49] magrittr_2.0.1 Rcpp_1.0.7 munsell_0.5.0 fansi_0.4.2
[53] abind_1.4-5 lifecycle_1.0.0 stringi_1.7.4 whisker_0.4
[57] yaml_2.2.1 carData_3.0-4 grid_4.0.2 promises_1.2.0.1
[61] crayon_1.4.1 lattice_0.20-41 haven_2.3.1 hms_1.0.0
[65] knitr_1.31 pillar_1.6.1 ggsignif_0.6.0 codetools_0.2-18
[69] reprex_2.0.0 glue_1.4.2 evaluate_0.14 data.table_1.14.0
[73] modelr_0.1.8 vctrs_0.3.8 httpuv_1.5.5 cellranger_1.1.0
[77] gtable_0.3.0 assertthat_0.2.1 openxlsx_4.2.3 xfun_0.23
[81] broom_0.7.9 e1071_1.7-8 rstatix_0.6.0 later_1.1.0.1
[85] class_7.3-18 units_0.7-2 ellipsis_0.3.2