03_search_pubmed.Rmd

# Search PubMed records {#search-pubmed-1}

`getPubmed` function utilizes `r CRANpkg("europepmc")` to easily get PubMed records by searching paper abstract.

Users need to input the `term` argument; if there is any supplement information, the `keys` parameter is available.

For example, if user wants to check papers for genes "Tp53", "Brca1," and "Tet2" research of mouse stem cells:

```{r}
term <- c("Tp53", "Brca1", "Tet2")
keys <- c("stem cell", "mouse")
l <- getPubmed(term, keys)
names(l)
head(l$Tp53, 5)
```

> **NOTICE**:
A minor update has been made in version 0.8.6 or above. Argument `keys` is replaced with `add_term` for easy understanding, and the `num` parameter is added to specify the number of returned records.

```{r eval=FALSE}
term <- c("Tp53", "Brca1", "Tet2")
add_term <- c("stem cell", "mouse")
l <- getPubmed(term, add_term, num = 30)
# set "num" larger to get all records
all <- getPubmed(term, add_term, num = 666666)
```