When requesting data using {finbif} you can select from among (or order by) many variables (properties of the occurrence records). The default set of variables returned is a small subset of those available. Note that not all variables are available for all records. See ?variables for details.
To retrieve a limited set of variables from FinBIF simply specify the desired variables in the select argument.
finbif_occurrence(
genus = "Falco",
select = c("scientific_name", "life_stage", "sex")
)
#> Records downloaded: 10
#> Records available: 280421
#> A data.frame [10 x 3]
#> scientific_name life_stage sex
#> 1 Falco tinnunculus NA NA
#> 2 Falco tinnunculus NA NA
#> 3 Falco tinnunculus NA NA
#> 4 Falco tinnunculus NA NA
#> 5 Falco tinnunculus NA NA
#> 6 Falco tinnunculus NA NA
#> 7 Falco tinnunculus NA NA
#> 8 Falco tinnunculus NA NA
#> 9 Falco tinnunculus NA NA
#> 10 Falco tinnunculus NA NATo get extra variables as well as the default set, specify the extra variables in addition to the keyword "default_vars".
finbif_occurrence(select = c("default_vars", "life_stage"))
#> Records downloaded: 10
#> Records available: 34696897
#> A data.frame [10 x 13]
#> record_id scientific_name abundance lat_wgs84 lon_wgs84 date_time
#> 1 JX.1110588#7 Aglais io 2 63.13815 21.56879 2020-04-21 12:00:00
#> 2 JX.1110588#4 Aglais urticae 6 63.13815 21.56879 2020-04-21 12:00:00
#> 3 JX.1110588#10 Nymphalis antiopa 1 63.13815 21.56879 2020-04-21 12:00:00
#> 4 JX.1110427#4 Noccaea caerulescen… 1 60.72342 24.84861 2020-04-21 12:00:00
#> 5 KE.176/5e5bb8932d0e… Aglais urticae 1 62.94 26.794 2020-04-21 12:00:00
#> 6 JX.1110587#148 Phasianus colchicus 1 60.4088 22.20608 2020-04-21 12:00:00
#> 7 JX.1110587#82 Pica pica 7 60.4088 22.20608 2020-04-21 12:00:00
#> 8 JX.1110587#121 Ardea cinerea 1 60.4088 22.20608 2020-04-21 12:00:00
#> 9 JX.1110587#112 Larus argentatus 3 60.4088 22.20608 2020-04-21 12:00:00
#> 10 JX.1110587#115 Picus canus 1 60.4088 22.20608 2020-04-21 12:00:00
#> ...with 0 more records and 7 more variables:
#> coordinates_uncertainty, any_issues, requires_verification, requires_identification,
#> record_reliability, record_quality, life_stageYou can change the order of occurrence records before they are fetched from the server by using the order_by argument. The default ordering is date_start descending, then load_date descending, then reported_name.
By default occurrence records are ordered by variables in ascending order.
finbif_occurrence("Cygnus cygnus", order_by = "abundance")
#> Records downloaded: 10
#> Records available: 57007
#> A data.frame [10 x 12]
#> record_id scientific_name abundance lat_wgs84 lon_wgs84 date_time
#> 1 KE.67/9403350#Unit Cygnus cygnus 1 60.41667 16 1997-04-01 13:00:00
#> 2 MHU.29327372 Cygnus cygnus 1 63.37022 30.37826 <NA>
#> 3 KE.176/58c7db302d0e… Cygnus cygnus 1 61.082 27.78355 2017-04-08 12:00:00
#> 4 KE.67/9069501#Unit Cygnus cygnus 1 52.71667 1.55 1997-01-03 14:00:00
#> 5 MHU.12651157 Cygnus cygnus 1 61.21489 23.36719 2006-06-12 12:00:00
#> 6 KE.67/9465507#Unit Cygnus cygnus 1 61.8 22.76667 2000-03-22 12:00:00
#> 7 KE.67/9607357#Unit Cygnus cygnus 1 63.13333 22.43333 2003-06-07 12:00:00
#> 8 A.94EBF006-FAD1-482… Cygnus cygnus 1 61.72481 24.17242 <NA>
#> 9 MHU.30415803 Cygnus cygnus 1 60.23968 25.79487 <NA>
#> 10 MHU.18161417 Cygnus cygnus 1 62.27627 23.59633 1994-04-30 19:50:00
#> ...with 0 more records and 6 more variables:
#> coordinates_uncertainty, any_issues, requires_verification, requires_identification,
#> record_reliability, record_qualityYou can switch to descending order by prefixing the variable with a dash.
finbif_occurrence("Cygnus cygnus", order_by = "-abundance")
#> Records downloaded: 10
#> Records available: 57007
#> A data.frame [10 x 12]
#> record_id scientific_name abundance lat_wgs84 lon_wgs84 date_time
#> 1 MHU.2981587 Cygnus cygnus 6000 64.4 -14.54 1995-07-05 15:00:00
#> 2 MHU.29480894 Cygnus cygnus 2010 64.54597 27.88859 2010-01-01 12:00:00
#> 3 MHU.28815250 Cygnus cygnus 1500 NA NA 2003-04-18 15:00:00
#> 4 MHU.28815110 Cygnus cygnus 1200 NA NA 2003-04-16 15:00:00
#> 5 KE.8_1209789#134 Cygnus cygnus 1064 62.50172 21.3326 2017-11-04 08:40:00
#> 6 KE.8_1186061#2 Cygnus cygnus 722 60.9717 26.48918 2012-11-04 09:00:00
#> 7 KE.8_1071847#190 Cygnus cygnus 673 60.76462 26.09601 2012-11-07 08:00:00
#> 8 MHU.1072224 Cygnus cygnus 645 64.84588 25.62653 2005-11-05 12:00:00
#> 9 JX.111286#2 Cygnus cygnus 645 64.84588 25.62653 2005-11-05 09:00:00
#> 10 MHU.29306332 Cygnus cygnus 641 62.27627 23.59633 2008-11-20 12:00:00
#> ...with 0 more records and 6 more variables:
#> coordinates_uncertainty, any_issues, requires_verification, requires_identification,
#> record_reliability, record_qualityYou can specify multiple variables to order by. Sorting primacy is from left to right.
finbif_occurrence("Cygnus olor", order_by = c("municipality", "-abundance"))
#> Records downloaded: 10
#> Records available: 24344
#> A data.frame [10 x 12]
#> record_id scientific_name abundance lat_wgs84 lon_wgs84 date_time
#> 1 JX.133519#2 Cygnus olor 4 61.13908 23.93331 2007-11-04 09:00:00
#> 2 JX.133468#2 Cygnus olor 3 61.13908 23.93331 1990-11-04 09:00:00
#> 3 JX.81211#2 Cygnus olor 3 61.22435 23.73872 1990-11-14 11:00:00
#> 4 KE.8_1106444#139 Cygnus olor 2 61.16607 23.91207 2013-11-09 08:30:00
#> 5 KE.8_1025765#50 Cygnus olor 1 61.22435 23.73872 2007-03-01 10:00:00
#> 6 MHU.28634404 Cygnus olor 4 61.13908 23.93331 2007-11-04 12:00:00
#> 7 JX.135405#3 Cygnus olor 6 61.2287 23.92458 2002-11-01 12:00:00
#> 8 JX.135402#3 Cygnus olor 3 61.2287 23.92458 2000-12-22 12:00:00
#> 9 MHU.12868652 Cygnus olor 1 61.2287 23.92458 2006-03-11 12:00:00
#> 10 MHU.29307741 Cygnus olor 1 61.2287 23.92458 2010-05-11 12:00:00
#> ...with 0 more records and 6 more variables:
#> coordinates_uncertainty, any_issues, requires_verification, requires_identification,
#> record_reliability, record_qualityYou can also request a random sample (random order) of occurrence records by setting the sample argument to TRUE.
finbif_occurrence(sample = TRUE)
#> Records downloaded: 10
#> Records available: 34696897
#> A data.frame [10 x 12]
#> record_id scientific_name abundance lat_wgs84 lon_wgs84 date_time
#> 1 MHU.28617380 Poecile montanus 6 60.07116 24.39247 2005-11-05 12:00:00
#> 2 JX.544412#2 Macaria wauaria 2 60.90432 26.7206 2007-01-01 12:00:00
#> 3 KE.67/4941088#Unit Parus major 1 60.43333 22.13333 1978-06-14 12:00:00
#> 4 JX.1099912#4 Lutra lutra 1 64.15453 28.28361 2020-02-16 12:00:00
#> 5 MKC.746569 Alchemilla glaucesc… 1 60.24286 24.01753 1906-06-08 12:00:00
#> 6 KE.67/6848719#Unit Phylloscopus trochi… 1 60.48775 26.93416 1994-08-31 12:00:00
#> 7 JX.468110#2 Mythimna impura 1 60.1622 21.49994 2002-01-01 12:00:00
#> 8 JX.115482#17 Periparus ater 5 62.23926 21.70279 2004-11-06 09:00:00
#> 9 KE.67/8872635#Unit Acrocephalus scirpa… 1 60.21319 24.99189 1986-08-11 07:00:00
#> 10 JX.241328#2 Colocasia coryli 1 62.24982 27.47792 2014-06-09 12:00:00
#> ...with 0 more records and 6 more variables:
#> coordinates_uncertainty, any_issues, requires_verification, requires_identification,
#> record_reliability, record_quality