Retrieve a count and a list of text-mined terms gathered by Europe PMC.

epmc_tm(ext_id = NULL, data_src = "med", semantic_type = NULL,
  limit = 100, verbose = TRUE)

Arguments

ext_id

character, publication identifier

data_src

character, data source, by default Pubmed/MedLine index will be searched. The following three letter codes represent the sources Europe PubMed Central supports:

agr

Agricola is a bibliographic database of citations to the agricultural literature created by the US National Agricultural Library and its co-operators.

cba

Chinese Biological Abstracts

ctx

CiteXplore

eth

EthOs Theses, i.e. PhD theses (British Library)

hir

NHS Evidence

med

PubMed/Medline NLM

nbk

Europe PMC Book metadata

pat

Biological Patents

pmc

PubMed Central

semantic_type

controlled vocabulary. Specify the semantic type you wish to retrieve. The following types are supported:

ACCESSION

accession IDs for DNA or protein sequences

CHEMICAL

chemicals

DISEASE

diseases

EFO

Experimental Factor Ontology (http://www.ebi.ac.uk/efo/)

GENE_PROTEIN

gene proteins

GO_TERM

Gene Ontology Terms (http://geneontology.org/)

ORGANISM

organism

limit

integer, number of results. By default, this function returns 100 records.

verbose

logical, print some information on what is going on.

Value

Terms found as tibble

Examples

# NOT RUN {
epmc_tm("25249410", semantic_type = "GO_TERM")
epmc_tm("PMC4340542", data_src = "pmc", semantic_type = "GO_TERM")
# }