CRAN/E | pmparser

pmparser

Create and Maintain a Relational Database of Data from PubMed/MEDLINE

Installation

About

Provides a simple interface for extracting various elements from the publicly available PubMed XML files, incorporating PubMed's regular updates, and combining the data with the NIH Open Citation Collection. See Schoenbachler and Hughey (2021) doi:10.7717/peerj.11071.

pmparser.hugheylab.org
github.com/hugheylab/pmparser
System requirements head, unzip, sqlite

Key Metrics

Version 1.0.20
R ≥ 3.6
Published 2024-01-13 111 days ago
Needs compilation? no
License GPL-2
CRAN checks pmparser results

Downloads

Yesterday 10 -63%
Last 7 days 92 -4%
Last 30 days 354 -3%
Last 90 days 1.029 -28%
Last 365 days 4.321 +49%

Maintainer

Maintainer

Jake Hughey

jakejhughey@gmail.com

Authors

Jake Hughey

aut / cre

Josh Schoenbachler

aut

Elliot Outland

aut

Material

NEWS
Reference manual
Package source

Vignettes

Data Dictionary

macOS

r-release

arm64

r-oldrel

arm64

r-release

x86_64

Windows

r-devel

x86_64

r-release

x86_64

r-oldrel

x86_64

Old Sources

pmparser archive

Depends

R ≥ 3.6

Imports

curl ≥ 4.3.2
data.table ≥ 1.12.2
DBI ≥ 1.1.0
foreach ≥ 1.5.0
glue ≥ 1.4.2
iterators ≥ 1.0.12
jsonlite ≥ 1.7.0
R.utils ≥ 2.10.1
RCurl ≥ 1.98
withr ≥ 2.3.0
xml2 ≥ 1.3.3

Suggests

bigrquery ≥ 1.3.2
doParallel ≥ 1.0.16
RMariaDB ≥1.0.9
RPostgres ≥ 1.2.0
RSQLite ≥ 2.2.0
testthat ≥2.3.2
knitr
rmarkdown