Description Usage Arguments Value Author(s) Examples
View source: R/simplifyResult.R
This function converts the values of a column variable within a dataset into comma-separated, character strings. The process is achieved by using another column of the same dataset as index.
1 2 3 4 5 6 | simplifyResult(
dataset,
index_column,
values_column,
returnInDataframe = FALSE
)
|
dataset |
a data.frame containing the data |
index_column |
a character string or a numeric/integer value indicating the column which will be used as index. |
values_column |
a character string or a numeric/integer value indicating the column whose values will be converted into comma-separated, character strings. |
returnInDataframe |
a logical value indicating whether to return only the converted columns or to append the character strings to the dataset. |
If returnInDataframe argument is set to FALSE then a data.frame is returned with the unique values of the index column and the character strings of the values_column that correspond to each.
If returnInDataframe argument is set to TRUE then the original dataset is returned containing an extra column in which the character strings of the values_column have been appended.
InterMine Team
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 | # get HumanMine
im.human = initInterMine(listMines()["HumanMine"])
# get template query for retrieving GOTerms for specific genes
qGene_GO = getTemplateQuery(im.human, "Gene_GO")
# retrieve GOTerms for four different genes
rGene_GO = list(NULL)
for(i in seq(length(c("PPARG", "RPL5", "RPL11", "TP53")))){
g = c("PPARG", "RPL5", "RPL11", "TP53")[i]
qGene_GO$where[[1]]$value = g
rGene_GO[[i]] = runQuery(im.human, qGene_GO)
}
# rbind results to data.frame
rGene_GO = do.call(rbind, rGene_GO)
# return simplified GOTerms results for each Gene
simplify_GOTerms = simplifyResult(
dataset = rGene_GO,
index_column = "Gene.symbol",
values_column = "Gene.goAnnotation.ontologyTerm.identifier",
returnInDataframe = FALSE
)
# return simplified GOTerms results for each Gene, within the original data.frame
simplify_GOTerms.2 = simplifyResult(
dataset = rGene_GO,
index_column = "Gene.symbol",
values_column = "Gene.goAnnotation.ontologyTerm.identifier",
returnInDataframe = TRUE
)
|
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