Get pubmed data

Introduction

This vignette demonstrates how to retrieve citation data from PubMed using:

• get_pubmed_count() — to retrieve the total count of articles matching a term.
• get_pubmed_by_year() — to get article counts by publication year.

These functions are part of the risk.assessr package.

DISCLAIMER: This feature only works if you choose a good R package name.

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Setting Your PubMed API Key

To increase request limits and improve stability, you can use an NCBI API key.

# Replace with your actual API key
options(pubmed.api_key = "your_actual_ncbi_api_key")

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Load Required Libraries

library(risk.assessr)
library(ggplot2)

package_name <- "limma"

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Total Number of Articles Matching a Term

pubmed_count <- get_pubmed_count(package_name)
pubmed_count

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Number of Articles by Year

citation_data <- get_pubmed_by_year(package_name, years_back = 20)
citation_data

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Plotting the Article Trend Over Time