Convert 'decimal' format (123.45 style) ICD-9 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.
explain(...)explain_icd(...)
# S3 method for default
explain(x, short_code = guess_short(x), condense = TRUE,
brief = FALSE, warn = TRUE, ...)
# S3 method for list
explain(x, ...)
# S3 method for icd9
explain(...)
# S3 method for icd9cm
explain(x, short_code = guess_short(x), condense = TRUE,
brief = FALSE, warn = TRUE, ...)
# S3 method for icd10cm
explain(x, short_code = guess_short(x), condense = TRUE,
brief = FALSE, warn = TRUE, ...)
# S3 method for icd10
explain(x, short_code = guess_short(x), condense = TRUE,
brief = FALSE, warn = TRUE, ...)
icd_explain(...)
icd_explain.default(...)
icd_explain.icd10(...)
icd_explain.icd10cm(...)
icd_explain.icd9(...)
icd_explain.icd9cm(...)
icd_explain.list(...)
icd_explain_table.default(...)
icd_explain(...)
arguments passed on to other functions
vector or other structure of ICD codes to explain in human language
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 sub-types.
single logical value, default is FALSE. If TRUE,
the short description from the canonical CMS descriptions (included in
data-raw) 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.
data frame, or list of data frames, with fields for ICD-9 code, name
and description. There is no guarantee on the order of the returned
descriptions. explain_table is designed to provide results in a
reliable order (when not condensing codes, at least).
default: Explain ICD codes from a character vector, guessing
ICD version
list: Explain all ICD-9 codes in a list of vectors
icd9: explain character vector of ICD-9 codes.
icd9cm: explain character vector of ICD-9-CM codes
icd10cm: ICD-10-CM explanation, current a minimal implementation
icd10: ICD-10 explanation, falls back on ICD-10-CM until
ICD-10 WHO copyright workaround is available
Future versions of icd will drop
the icd_ prefix. For example, charlson should be used in
favor of icd_charlson. To distinguish icd function calls,
consider using the namespace prefix icd:: instead, e.g.,
icd::charlson. Functions which specifically operate on either ICD-9
or ICD-10 codes or their subtypes will retain the prefix. E.g.
icd9_comorbid_ahrq. icd specific classes also retain
the prefix, e.g., icd_wide_data.
Future versions of icd will drop
the icd_ prefix. For example, charlson should be used in
favor of icd_charlson. To distinguish icd function calls,
consider using the namespace prefix icd:: instead, e.g.,
icd::charlson. Functions which specifically operate on either ICD-9
or ICD-10 codes or their subtypes will retain the prefix. E.g.
icd9_comorbid_ahrq. icd specific classes also retain
the prefix, e.g., icd_wide_data.
Future versions of icd will drop
the icd_ prefix. For example, charlson should be used in
favor of icd_charlson. To distinguish icd function calls,
consider using the namespace prefix icd:: instead, e.g.,
icd::charlson. Functions which specifically operate on either ICD-9
or ICD-10 codes or their subtypes will retain the prefix. E.g.
icd9_comorbid_ahrq. icd specific classes also retain
the prefix, e.g., icd_wide_data.
Future versions of icd will drop
the icd_ prefix. For example, charlson should be used in
favor of icd_charlson. To distinguish icd function calls,
consider using the namespace prefix icd:: instead, e.g.,
icd::charlson. Functions which specifically operate on either ICD-9
or ICD-10 codes or their subtypes will retain the prefix. E.g.
icd9_comorbid_ahrq. icd specific classes also retain
the prefix, e.g., icd_wide_data.
Future versions of icd will drop
the icd_ prefix. For example, charlson should be used in
favor of icd_charlson. To distinguish icd function calls,
consider using the namespace prefix icd:: instead, e.g.,
icd::charlson. Functions which specifically operate on either ICD-9
or ICD-10 codes or their subtypes will retain the prefix. E.g.
icd9_comorbid_ahrq. icd specific classes also retain
the prefix, e.g., icd_wide_data.
Future versions of icd will drop
the icd_ prefix. For example, charlson should be used in
favor of icd_charlson. To distinguish icd function calls,
consider using the namespace prefix icd:: instead, e.g.,
icd::charlson. Functions which specifically operate on either ICD-9
or ICD-10 codes or their subtypes will retain the prefix. E.g.
icd9_comorbid_ahrq. icd specific classes also retain
the prefix, e.g., icd_wide_data.
Future versions of icd will drop
the icd_ prefix. For example, charlson should be used in
favor of icd_charlson. To distinguish icd function calls,
consider using the namespace prefix icd:: instead, e.g.,
icd::charlson. Functions which specifically operate on either ICD-9
or ICD-10 codes or their subtypes will retain the prefix. E.g.
icd9_comorbid_ahrq. icd specific classes also retain
the prefix, e.g., icd_wide_data.
Future versions of icd will drop
the icd_ prefix. For example, charlson should be used in
favor of icd_charlson. To distinguish icd function calls,
consider using the namespace prefix icd:: instead, e.g.,
icd::charlson. Functions which specifically operate on either ICD-9
or ICD-10 codes or their subtypes will retain the prefix. E.g.
icd9_comorbid_ahrq. icd specific classes also retain
the prefix, e.g., icd_wide_data.
Future versions of icd will drop
the icd_ prefix. For example, charlson should be used in
favor of icd_charlson. To distinguish icd function calls,
consider using the namespace prefix icd:: instead, e.g.,
icd::charlson. Functions which specifically operate on either ICD-9
or ICD-10 codes or their subtypes will retain the prefix. E.g.
icd9_comorbid_ahrq. icd specific classes also retain
the prefix, e.g., icd_wide_data.
explain_icd is a synonym for explain to avoid conflict with dplyr::explain. Alternative is to use icd::explain.
# NOT RUN {
# by default, just show parent code and ignore children (428.0 not shown
# because 428 is present):
explain(icd9_map_ahrq$CHF[1:3])
# same without condensing the list. In this case, 428.0 is shown:
explain(icd9_map_ahrq$CHF[1:3], brief = TRUE)
# The first three in the ICD-10 equivalent are a little different:
explain(icd10_map_ahrq$CHF[1:3], brief = TRUE)
# nice to have magrittr, but not essential
library(magrittr, warn.conflicts = FALSE, quietly = TRUE)
explain(icd9_map_ahrq$CHF[1:3] %>% condense)
# }
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