Get the latest version of the NIH Open Citation Collection from figshare
here,
and optionally write it to the database. This function requires the shell
command unzip, available by default on most Unix systems. This function
should not normally be called directly, as it is called by
modifyPubmedDb().
Usage
getCitation(
localDir,
filename = "open_citation_collection.zip",
nrows = Inf,
tableSuffix = NULL,
overwrite = FALSE,
con = NULL,
checkMd5 = TRUE
)Arguments
- localDir
String indicating path to directory containing the citation file or to which the citation file should be downloaded.
- filename
String indicating name of the citation file. This should not normally be changed from the default.
- nrows
Number indicating how many rows of the citation file to read. This should not normally be changed from the default.
- tableSuffix
String indicating suffix, if any, to append to the table name.
- overwrite
Logical indicating whether to overwrite an existing table.
- con
Connection to the database, created using
DBI::dbConnect().- checkMd5
Logical indicating whether to download the citation file if the MD5 sums of the local and remote versions do not match. This should not normally be changed from the default.
Value
If con is NULL, the function returns a data.table with columns
citing_pmid and cited_pmid. Beware this is a large table and could
swamp the machine's memory. If con is not NULL, the function returns
NULL invisibly.