convert full format (123.45 style) ICD9 codes into the name and description for human review there are official ICD9-CM data tables, not with conversion to decimal notation, but to the textual format.
icd9Explain(icd9, isShort = icd9GuessIsShort(icd9), doCondense = TRUE,
brief = FALSE, warn = TRUE, toMajor = TRUE)icd9ExplainShort(icd9Short, doCondense = TRUE, brief = FALSE, warn = TRUE,
toMajor = TRUE)
icd9ExplainDecimal(icd9Decimal, doCondense = TRUE, brief = FALSE,
warn = TRUE, toMajor = TRUE)
# S3 method for list
icd9Explain(icd9, isShort = icd9GuessIsShort(icd9),
doCondense = TRUE, brief = FALSE, warn = TRUE, toMajor = TRUE)
# S3 method for factor
icd9Explain(icd9, isShort = icd9GuessIsShort(icd9),
doCondense = TRUE, brief = FALSE, warn = TRUE, toMajor = TRUE)
# S3 method for character
icd9Explain(icd9, isShort = icd9GuessIsShort(icd9),
doCondense = TRUE, brief = FALSE, warn = TRUE, toMajor = TRUE)
# S3 method for numeric
icd9Explain(icd9, isShort = icd9GuessIsShort(icd9),
doCondense = TRUE, brief = FALSE, warn = FALSE, toMajor = TRUE)
is a character vector or factor of ICD-9 codes. If fewer than five characters is given in a code, then the digits are greedily assigned to hundreds, then tens, then units, before the decimal parts. E.g. "10" becomes "010", not "0010".
single logical value which determines whether the ICD-9 code provided is in short (TRUE) or decimal (FALSE) form. Where reasonable, this is guessed from the input data.
single logical value which indicates whether to condense the given set of ICD-9 codes by replacing subsets of codes with 'parent' codes which exactly encompass certain subsets. E.g. If all cholera diagnoses are provided, only '001 - Cholera' needs to be displayed, not all subtypes.
single logical value, default is FALSE. If TRUE,
the short description from the canonical CMS descriptions (included in
extdata) will be used, otherwise the long description is used.
single logical value, default is TRUE, meaning that codes
which do not correspond to diagnoses, or to three-digit codes, will trigger
a warning.
Most major codes are not real, e.g. Salmonella 003 is a major category, but is not itself used as a diagnostic code. Therefore, strictly, asking for only real codes excludes the major. We'll turn a blind eye to this if we specifically request majors with toMajor.
is a character vector of ICD-9 codes. If fewer than five characters is given in a code, then the digits are greedily assigned to hundreds, then tens, then units, before the decimal parts. E.g. "10" becomes "010", not "0010"
character vector of ICD-9 codes. If fewer than five characters is given in a code, then the digits are greedily assigned to hundreds, then tens, then units, before the decimal parts. E.g. "10" becomes "010", not "0010"
data frame, or list of data frames, with fields for ICD9 code, name and description, derived from datamart lookup table
list: explain all ICD-9 codes in a list of vectors
factor: explain factor of ICD-9 codes
character: explain character vector of ICD-9 codes
numeric: explain numeric vector of ICD-9 codes, with warning.
In general, this is not allowed because of the possible ambiguity of
numeric decimal codes, but for convenience, this is allowed in this case to
avoid typing many quotes.
package comorbidities
# NOT RUN {
icd9ExplainShort(ahrqComorbid[[1]][1:3])
icd9Explain(ahrqComorbid[[1]][1:3], brief = TRUE)
# }
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