check_eset | R Documentation |
This function is used to check the integrity and outliers of the given expression set, providing corresponding warnings and print results. It detects the presence of missing values, infinite values, and features with zero standard deviation.
check_eset(eset, print_result = FALSE, estimate_sd = FALSE)
eset |
The matrix to be checked. |
print_result |
Whether to print the check results. Default is FALSE. If set to TRUE, it will print the results of each check. |
estimate_sd |
Whether to estimate the standard deviation. Default is FALSE. If set to TRUE, it will estimate the standard deviation for each feature and provide warnings and print results accordingly. |
Dongqiang Zeng
# Loading TCGA-STAD expresion data(raw count matrix)
data("eset_stad", package = "IOBR")
# transform count data to tpm
eset <- count2tpm(eset_stad, idType = "ensembl")
check_eset(eset)
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