Prepare Weigth mean date
Antonio J.
Pérez-Luque
Last updated: 2023-08-21
Checks: 6 1
Knit directory: ms_mariposas_pheno/
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| File | Version | Author | Date | Message |
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| html | 6239c1d | ajpelu | 2023-08-18 | Build site. |
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library(tidyverse)
library(readxl)
library(janitor)
library(DT)df_raw <- read_delim("data/raw_data/Pheno_def.csv", delim = ";") |>
janitor::clean_names() |>
mutate(valid_date = as.Date(date, format = "%d/%m/%y")) |>
mutate(doy = lubridate::yday(valid_date))df_raw |> DT::datatable()# Agrupa por sitio, fecha, specie y suma todos los contactos de un transecto (los tramos)
df <- df_raw |>
dplyr::select(valid_date, id_site, site, species, ntotal, doy, year) |>
group_by(species, valid_date, doy, id_site, site, year) |>
summarise(total_count = sum(ntotal))df |> DT::datatable()df_aux <- df |>
rowwise() |> # esto es para permitir operar a nivel de fila
mutate(doy_x_bichos = doy * total_count) # dia juliano * mariposas ese día
df_aux |> DT::datatable()df_pheno <- df_aux |>
group_by(species, site, id_site, year) |> # agrupar por sitio, especie y año
summarise(sum_doy_bichos = sum(doy_x_bichos), # Σ(día juliano x mariposas que se contabilizan ese día)
sum_conteos = sum(total_count)) |> # total de mariposas de la especie x que se han contabilizado este año:
ungroup() |>
rowwise() |>
mutate(weigth_mean_date = round(sum_doy_bichos / sum_conteos, 0)) |>
separate(id_site, into = c("m", "site_id")) |>
dplyr::select(-m) |>
mutate(site_id = as.numeric(site_id))
df_pheno |> DT::datatable()write_csv(df_pheno, here::here("data/doy_peak_sps_WMD.csv"))
sessionInfo()R version 4.2.3 (2023-03-15)
Platform: x86_64-apple-darwin17.0 (64-bit)
Running under: macOS Big Sur ... 10.16
Matrix products: default
BLAS: /Library/Frameworks/R.framework/Versions/4.2/Resources/lib/libRblas.0.dylib
LAPACK: /Library/Frameworks/R.framework/Versions/4.2/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] DT_0.26 janitor_2.1.0 readxl_1.4.2 lubridate_1.9.2
[5] forcats_1.0.0 stringr_1.5.0 dplyr_1.1.0 purrr_1.0.1
[9] readr_2.1.4 tidyr_1.3.0 tibble_3.1.8 ggplot2_3.4.1
[13] tidyverse_2.0.0 workflowr_1.7.0
loaded via a namespace (and not attached):
[1] Rcpp_1.0.10 here_1.0.1 getPass_0.2-2 ps_1.7.1
[5] rprojroot_2.0.3 digest_0.6.31 utf8_1.2.2 R6_2.5.1
[9] cellranger_1.1.0 evaluate_0.19 httr_1.4.4 pillar_1.8.1
[13] rlang_1.1.0 rstudioapi_0.14 whisker_0.4 callr_3.7.3
[17] jquerylib_0.1.4 rmarkdown_2.19 htmlwidgets_1.6.2 bit_4.0.4
[21] munsell_0.5.0 compiler_4.2.3 httpuv_1.6.8 xfun_0.39
[25] pkgconfig_2.0.3 htmltools_0.5.4 tidyselect_1.2.0 fansi_1.0.3
[29] crayon_1.5.2 tzdb_0.3.0 withr_2.5.0 later_1.3.0
[33] grid_4.2.3 jsonlite_1.8.4 gtable_0.3.1 lifecycle_1.0.3
[37] git2r_0.30.1 magrittr_2.0.3 scales_1.2.1 cli_3.6.0
[41] stringi_1.7.8 vroom_1.6.3 cachem_1.0.6 fs_1.6.2
[45] promises_1.2.0.1 snakecase_0.11.0 bslib_0.4.2 ellipsis_0.3.2
[49] generics_0.1.3 vctrs_0.6.0 tools_4.2.3 bit64_4.0.5
[53] glue_1.6.2 crosstalk_1.2.0 hms_1.1.2 parallel_4.2.3
[57] processx_3.7.0 fastmap_1.1.0 yaml_2.3.7 timechange_0.1.1
[61] colorspace_2.0-3 knitr_1.41 sass_0.4.5