pubmed.network

This R package contains functions for network analysis of PubMed data.

Description

An ongoing network analysis of an excerpt of the [PubMed bibliographic database] 2 makes use of the [Author-ity database] 1 to disambiguate author names. The data consolidation consists in omitting

• PMIDs (PubMed publication identification numbers) from the PubMed excerpt that do not appear, or do not appear as many times as they should (once for each author), in Author-ity; and
• PMIDs from Author-ity that do not appear in the PubMed excerpt.

Further steps will be discussed as they are performed.

Install

The repo is arranged as an R package and can be installed using the devtools package:

if(!require(devtools)) {
    install.packages('devtools')
    stopifnot(require(devtools))
}
install_github('corybrunson/pubmed.network')

If you experience any problems with the installation process (that aren't resolved by ? and searching, e.g., [StackExchange] 3, please let me know.

References

The Author-ity database is credited to:

• Torvik VI, Smalheiser NR. "Author name disambiguation in MEDLINE." ACM Transactions on Knowledge Discovery from Data 2009; 3(3):11.
• Smalheiser NR, Torvik VI. "Author name disambiguation." In Annual Review of Information Science and Technology (B. Cronin, Ed.), Vol. 43 (2009), pp. 287-313.