Extract SNPs from abstracts in data frame

Extract SNPs from abstracts in a data frame.

extract_snp(
  df,
  pattern = snp_pattern,
  col.abstract = Abstract,
  indicate = FALSE,
  discard = FALSE
)

Arguments

df	Data frame containing abstracts.
pattern	String. Regex pattern to identify SNPs.
col.abstract	Symbol. Column containing abstracts.
indicate	Boolean. If indicate = TRUE, add another column called "SNP_present", verbally indicating if a SNP is present in an abstract.
discard	Boolean. If discard = TRUE, only abstracts containing a SNP are kept.

Value

Data frame. If discard = FALSE, return the data frame with an additional column for SNPs. If discard = TRUE, return only abstracts containing SNPs.

Details

Extract SNPs from abstracts in a data frame. SNPs are added to the data frame in a separate column. Furthermore, an optional column can indicate if SNPs are generally present in an abstract.

See also

count_snp(), get_snp(), subset_snp()

Other extract functions: extract_mir_df(), extract_mir_string()