compact_ids | R Documentation |
Compacting and converting the id values to numeric if required to make sure dependent functions work well
compact_ids(dat, id = "id", accid = "accid", startid = 1, verbose = TRUE)
dat |
taxonomic list in a data frame with id and accid columns |
id |
column name for 'id'. Default 'id' |
accid |
column name for 'accid'. Default 'accid' |
startid |
starting id number for the list. Default 1 |
verbose |
verbose output on the console |
Helper function to make sure values for ids are in right format and are compact
returns data frame
Other List functions:
DwC2taxo()
,
cast_cs_field()
,
get_synonyms()
,
match_lists()
,
melt_cs_field()
,
merge_lists()
,
syn2taxo()
,
synonymize_subspecies()
,
taxo2DwC()
,
taxo2doc()
,
taxo2syn()
,
wiki2taxo()
mylist <- data.frame("id" = c("1","2","3","4","5"), "canonical" = c("Hypochlorosis ancharia", "Pseudonotis humboldti", "Myrina ancharia", "Hypochlorosis ancharia obiana", "Hypochlorosis lorquinii"), "family" = c("Lycaenidae", "Lycaenidae", "Lycaenidae", "Lycaenidae", "Lycaenidae"), "accid" = c("0","1","1","0","0"), "source" = c("itis","wiki","wiki","itis", "itis"), stringsAsFactors = FALSE) mylist_c <- compact_ids(mylist) mylist_c <- compact_ids(mylist,startid=1001) mylist <- data.frame("id" = c(11,12,13,14,15), "canonical" = c("Hypochlorosis ancharia", "Pseudonotis humboldti", "Myrina ancharia", "Hypochlorosis ancharia obiana", "Hypochlorosis lorquinii"), "family" = c("Lycaenidae", "Lycaenidae", "Lycaenidae", "Lycaenidae", "Lycaenidae"), "accid" = c(0,11,11,0,0), "source" = c("itis","wiki","wiki","itis", "itis"), stringsAsFactors = FALSE) mylist_c <- compact_ids(mylist)
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