count_words: Calculate word frequency

In jokergoo/simplifyGO: Simplify Functional Enrichment Results

Calculate word frequency

Description

Calculate word frequency

Usage

count_words(
  term,
  exclude_words = NULL,
  stop_words = stopwords(),
  min_word_length = 1,
  tokenizer = "words",
  transform_case = tolower,
  remove_numbers = TRUE,
  remove_punctuation = TRUE,
  custom_transformer = NULL,
  stemming = FALSE,
  dictionary = NULL
)

Arguments

term	A vector of description texts.
exclude_words	The words that should be excluded.
stop_words	The stop words that should be be removed.
min_word_length	Minimum length of the word to be counted.
tokenizer	The tokenizer function, one of the values accepted by tm::termFreq.
transform_case	The function normalizing lettercase of the words.
remove_numbers	Whether to remove numbers.
remove_punctuation	Whether to remove punctuation.
custom_transformer	Custom function that transforms words.
stemming	Whether to only keep the roots of inflected words.
dictionary	A vector of words to be counted (if given all other words will be excluded).

Details

The text preprocessing followings the instruction from http://www.sthda.com/english/wiki/word-cloud-generator-in-r-one-killer-function-to-do-everything-you-need.

Value

A data frame with words and frequencies.

Examples

gm = readRDS(system.file("extdata", "random_GO_BP_sim_mat.rds", package = "simplifyEnrichment"))
go_id = rownames(gm)
go_term = AnnotationDbi::select(GO.db::GO.db, keys = go_id, columns = "TERM")$TERM
count_words(go_term) |> head()

jokergoo/simplifyGO documentation built on Sept. 18, 2024, 9:45 p.m.