Small ForestGEO datasets for examples
Small ForestGEO datasets for examples
Access small example datasets from Luquillo, a ForestGEO site in Puerto Rico.
Install the latest stable version of fgeo.x from CRAN with:
install.packages("fgeo.x")Install the development version of fgeo.x from GitHub with:
# install.packages("devtools")
devtools::install_github("forestgeo/fgeo.x")Or install all fgeo packages in one step.
library(fgeo.x)Some datasets available in fgeo.x:
str(elevation)
#> List of 4
#> $ col :Classes 'tbl_df', 'tbl' and 'data.frame': 6565 obs. of 3 variables:
#> ..$ x : int [1:6565] 0 0 0 0 0 0 0 0 0 0 ...
#> ..$ y : int [1:6565] 0 5 10 15 20 25 30 35 40 45 ...
#> ..$ elev: num [1:6565] 364 364 363 363 363 ...
#> $ mat : num [1:101, 1:65] 364 364 363 363 363 ...
#> $ xdim: int 320
#> $ ydim: int 500
str(habitat)
#> Classes 'fgeo_habitat', 'tbl_df', 'tbl' and 'data.frame': 400 obs. of 3 variables:
#> $ gx : num 0 0 0 0 0 0 0 0 0 0 ...
#> $ gy : num 0 20 40 60 80 100 120 140 160 180 ...
#> $ habitats: int 1 1 1 1 1 1 1 1 1 1 ...
str(tree5)
#> Classes 'tbl_df', 'tbl' and 'data.frame': 30 obs. of 19 variables:
#> $ treeID : int 7624 8055 19930 23746 31702 35355 35891 39705 50184 57380 ...
#> $ stemID : int 160987 10036 117849 29677 39793 44026 44634 48888 60798 155867 ...
#> $ tag : chr "108958" "109482" "123493" "14473" ...
#> $ StemTag : chr "175325" "109482" "165576" "14473" ...
#> $ sp : chr "TRIPAL" "CECSCH" "CASARB" "PREMON" ...
#> $ quadrat : chr "722" "522" "425" "617" ...
#> $ gx : num 138.7 94.8 61.3 100.3 53.8 ...
#> $ gy : num 425.3 424.4 495.7 328 73.8 ...
#> $ MeasureID: int 486675 468874 471979 442571 447307 449169 434266 451067 437645 459427 ...
#> $ CensusID : int 5 5 5 5 5 5 5 5 5 5 ...
#> $ dbh : num 10.9 165 23.6 170 67 50 269 67 240 16.6 ...
#> $ pom : chr "1.3" "1.3" "1.3" "1.3" ...
#> $ hom : num 1.3 1.3 1.3 1.32 1.37 1.4 1.26 1.5 1.3 1.3 ...
#> $ ExactDate: Date, format: "2012-02-01" "2012-01-30" ...
#> $ DFstatus : chr "alive" "alive" "alive" "alive" ...
#> $ codes : chr "SPROUT;A" "MAIN;A" "SPROUT;A" "MAIN;A" ...
#> $ nostems : num 2 1 2 1 1 1 1 5 1 3 ...
#> $ status : chr "A" "A" "A" "A" ...
#> $ date : num 19024 19022 19051 18967 18821 ...
str(stem5)
#> Classes 'tbl_df', 'tbl' and 'data.frame': 30 obs. of 19 variables:
#> $ treeID : int 4832 9689 23686 23903 24526 24978 25534 30954 32644 34407 ...
#> $ stemID : int 5905 12178 29616 29911 30750 31380 32193 38949 40902 42945 ...
#> $ tag : chr "10554" "111528" "14406" "14637" ...
#> $ StemTag : chr "10554" "111528" "14406" "14637" ...
#> $ sp : chr "MANBID" "CORBOR" "PREMON" "PREMON" ...
#> $ quadrat : chr "212" "1524" "417" "1017" ...
#> $ gx : num 30.8 289 69 193.7 194.2 ...
#> $ gy : num 235 465 335 334 359 ...
#> $ MeasureID: int 440357 469305 442528 442708 443140 443418 435148 446883 447786 435787 ...
#> $ CensusID : int 5 5 5 5 5 5 5 5 5 5 ...
#> $ dbh : num 148 NA 154 195 360 185 328 15.7 60 124 ...
#> $ pom : chr "1.5" NA "1.3" "1.2" ...
#> $ hom : num 1.48 NA 1.3 1.2 1.4 1.4 1.5 1.3 1.29 1.35 ...
#> $ ExactDate: Date, format: "2011-09-30" "2012-02-17" ...
#> $ DFstatus : chr "alive" "stem dead" "alive" "alive" ...
#> $ codes : chr "MAIN;A" "MAIN;A;LS;DP;ST" "MAIN;A" "MAIN;A" ...
#> $ countPOM : num 1 1 1 1 1 1 1 1 1 1 ...
#> $ status : chr "A" "G" "A" "A" ...
#> $ date : num 18900 19040 18966 19010 19009 ...
str(vft_4quad)
#> Classes 'tbl_df', 'tbl' and 'data.frame': 500 obs. of 32 variables:
#> $ DBHID : int 480614 467103 466804 388646 481054 388453 411794 411798 411761 388160 ...
#> $ PlotName : chr "luquillo" "luquillo" "luquillo" "luquillo" ...
#> $ PlotID : int 1 1 1 1 1 1 1 1 1 1 ...
#> $ Family : chr "Fabaceae-mimosoideae" "Salicaceae" "Meliaceae" "Salicaceae" ...
#> $ Genus : chr "Inga" "Casearia" "Guarea" "Casearia" ...
#> $ SpeciesName : chr "laurina" "sylvestris" "guidonia" "arborea" ...
#> $ Mnemonic : chr "INGLAU" "CASSYL" "GUAGUI" "CASARB" ...
#> $ Subspecies : chr NA NA NA NA ...
#> $ SpeciesID : int 128 73 117 70 70 185 184 117 184 70 ...
#> $ SubspeciesID : chr NA NA NA NA ...
#> $ QuadratName : chr "721" "621" "721" "622" ...
#> $ QuadratID : int 327 326 327 342 343 342 343 343 342 343 ...
#> $ PX : num 126 115 127 110 126 ...
#> $ PY : num 413 405 412 431 420 ...
#> $ QX : num 5.75 14.59 6.64 9.9 5.66 ...
#> $ QY : num 13.1 4.9 11.9 10.7 0.5 ...
#> $ TreeID : int 108604 2092 871 8811 109474 8475 109467 109471 109438 7843 ...
#> $ Tag : chr "154809" "102365" "100975" "110415" ...
#> $ StemID : int 143326 2555 114203 11057 144288 115993 144281 144285 144248 115875 ...
#> $ StemNumber : int 0 0 0 0 0 0 0 0 0 0 ...
#> $ StemTag : int 154809 102365 154808 110415 156286 156210 156268 156281 156223 156272 ...
#> $ PrimaryStem : chr NA NA NA NA ...
#> $ CensusID : int 5 5 5 4 5 4 4 4 4 4 ...
#> $ PlotCensusNumber: int 5 5 5 4 5 4 4 4 4 4 ...
#> $ DBH : num 30.8 74 22.3 NA 33.8 NA NA 16.5 NA 44.6 ...
#> $ HOM : num 1.3 1.3 1.3 NA 1.3 NA NA 1.3 NA 1.3 ...
#> $ ExactDate : Date, format: "2012-01-31" "2012-01-30" ...
#> $ Date : int 19023 19022 19023 17122 19024 17125 17126 17126 17125 17126 ...
#> $ ListOfTSM : chr "MAIN;A" "MAIN;A" "SPROUT;A" "MAIN;A;LS;B" ...
#> $ HighHOM : int 1 1 1 1 1 1 1 1 1 1 ...
#> $ LargeStem : chr NA NA NA NA ...
#> $ Status : chr "alive" "alive" "alive" "broken below" ...Some other datasets that install with fgeo.x:
example_path()
#> [1] "csv" "mixed_files" "rdata" "rdata_one"
#> [5] "rds" "taxa.csv" "tsv" "vft_4quad.csv"
#> [9] "view" "weird" "xl"
dir(example_path("view"))
#> [1] "taxa.csv" "vft_4quad.csv"
str(read.csv(example_path("vft_4quad.csv")))
#> 'data.frame': 500 obs. of 32 variables:
#> $ DBHID : int 385164 385261 384600 608789 388579 384626 410958 385102 353163 481018 ...
#> $ PlotName : Factor w/ 1 level "luquillo": 1 1 1 1 1 1 1 1 1 1 ...
#> $ PlotID : int 1 1 1 1 1 1 1 1 1 1 ...
#> $ Family : Factor w/ 20 levels "Araliaceae","Arecaceae",..: 17 20 17 17 2 1 17 15 2 19 ...
#> $ Genus : Factor w/ 30 levels "Alchornea","Alchorneopsis",..: 25 6 25 25 24 27 25 23 24 5 ...
#> $ SpeciesName : Factor w/ 36 levels " hirsuta","acuminata",..: 9 29 9 7 2 23 9 14 2 4 ...
#> $ Mnemonic : Factor w/ 37 levels "ALCFLO","ALCLAT",..: 32 7 32 31 30 34 32 28 30 5 ...
#> $ Subspecies : logi NA NA NA NA NA NA ...
#> $ SpeciesID : int 185 74 185 184 182 196 185 174 182 70 ...
#> $ SubspeciesID : logi NA NA NA NA NA NA ...
#> $ QuadratName : int 621 621 721 621 622 721 721 621 722 622 ...
#> $ QuadratID : int 326 326 327 326 342 327 327 326 343 342 ...
#> $ PX : num 119 109 133 117 113 ...
#> $ PY : num 414 411 416 412 424 ...
#> $ QX : num 19 9.4 12.9 16.6 12.6 ...
#> $ QY : num 13.64 10.52 15.9 11.58 3.62 ...
#> $ TreeID : int 1990 2177 797 124957 84880 862 108712 1848 26708 109413 ...
#> $ Tag : int 102244 102466 100889 175166 110271 100964 154949 102088 17576 156180 ...
#> $ StemID : int 2419 114525 981 163153 103483 1068 143443 2248 33769 144222 ...
#> $ StemNumber : int 0 0 0 0 0 0 0 0 0 0 ...
#> $ StemTag : int 102244 154442 100888 175166 110271 100964 154949 102088 17576 156180 ...
#> $ PrimaryStem : logi NA NA NA NA NA NA ...
#> $ CensusID : int 4 4 4 6 4 4 4 4 4 5 ...
#> $ PlotCensusNumber: int 4 4 4 6 4 4 4 4 4 5 ...
#> $ DBH : num NA NA NA 34.6 171 NA NA NA 163 36.2 ...
#> $ HOM : num NA NA NA 1.3 1.3 NA NA NA 1.35 1.3 ...
#> $ ExactDate : Factor w/ 14 levels "2006-11-16","2006-11-17",..: 2 2 4 10 2 4 5 1 3 7 ...
#> $ Date : int 17122 17122 17126 20662 17122 17126 17127 17121 17125 19023 ...
#> $ ListOfTSM : Factor w/ 16 levels "MAIN;A","MAIN;A;C",..: 8 14 14 1 1 8 8 8 1 1 ...
#> $ HighHOM : int 1 1 1 1 1 1 1 1 1 1 ...
#> $ LargeStem : logi NA NA NA NA NA NA ...
#> $ Status : Factor w/ 4 levels "alive","broken below",..: 3 4 4 1 1 3 3 3 1 1 ...Download data from fgeo.data:
str(download_data("luquillo_stem6_random"))
#> Classes 'tbl_df', 'tbl' and 'data.frame': 1320 obs. of 19 variables:
#> $ treeID : int 104 119 180 180 180 180 602 631 647 1086 ...
#> $ stemID : int 143 158 222 223 224 225 736 775 793 1339 ...
#> $ tag : chr "10009" "100104" "100171" "100171" ...
#> $ StemTag : chr "10009" "100104" "100095" "100096" ...
#> $ sp : chr "DACEXC" "MYRSPL" "CASARB" "CASARB" ...
#> $ quadrat : chr "113" "1021" "921" "921" ...
#> $ gx : num 10.3 182.9 164.6 164.6 164.6 ...
#> $ gy : num 245 410 410 410 410 ...
#> $ MeasureID: int 582850 578696 NA NA 617046 617049 614253 598429 614211 603131 ...
#> $ CensusID : int 6 6 NA NA 6 6 6 6 6 6 ...
#> $ dbh : num 195 44.9 NA NA NA 46.1 33.1 139 248 176 ...
#> $ pom : chr "1.45" "1.25" NA NA ...
#> $ hom : num 1.45 1.26 NA NA NA 1.34 1.3 1.25 1.35 1.42 ...
#> $ ExactDate: Date, format: "2016-04-20" "2016-08-04" ...
#> $ DFstatus : chr "alive" "alive" NA NA ...
#> $ codes : chr "MAIN;A" "MAIN;A" NA NA ...
#> $ countPOM : num 1 1 NA NA 1 1 1 1 1 1 ...
#> $ status : chr "A" "A" "G" "G" ...
#> $ date : num 20564 20670 NA NA 20670 ...