Description Usage Arguments Details Value Note Author(s) References See Also
Read a database which follows the Darwin Core Standard [1].
1 2 3 |
data |
Vector of characters. Name of the input file. |
path.data |
Vector of characters. Path to the input file. |
cut.col |
Numeric vector. Columns number to read into database. By default, the columns c(1,78,79,200,218,219) are read. These correspond to headers of the Darwin Core standard [1] : gbifID, decimalLongitude, decimalLatitude, elevation, speciesKey and species. See details. |
delt.undeterm |
Logical vector. If it is |
save.name |
Vector of characters. Name of the output file. |
wrt.frmt |
Vector of characters. Format to save output
file. By default it will be written as a R object using the
|
save.in |
Vector od characters. Path to the output file. |
We recommend to use this function when the database have fewer than one hundred
thousand occurrences.
This function works on R platform and can be performed on any operative
system (Linux, Mac OS or Windows). If the database to read has more than
one hundred thousand occurrences, we recommend to use the
readDbBash
function. readDbBash
uses
the cut function from BASH programming language and can be functional
on Linux or iOS operative systems, but the readDbBash
function always will be faster than readDbR
(until four times faster).
Databases downloaded from Global Biodiversity Information Facility (GBIF)[2] are exported with DarwinCore headers and the column separator is TAB.
See readAndWrite
function.
For cut.col parameter, the numbers columns to split must be sorted sequentially. For database download from GBIF [2], the number for each header can be seem using data('ID_DarwinCore) command on console in the ID colunm.
For more details about the formats to read and/or write, see
readAndWrite
function.
writing a data table as a data.frame class and a vector a table with descriptive statistics.
See: R-Alarcon V. and Miranda-Esquivel DR.(submitted) geocleaMT: An R package to cleaning geographical data from electronic biodatabases.
R-Alarcon Viviana and Miranda-Esquivel Daniel R.
[1] Wieczorek, J. et al. 2012. Darwin core: An evolving community-developed biodiversity data standard. PloS One 7: e29715.
[2] Global Biodiversity Information Facility. Available online at http://www.gbif.org/.
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.