Comorbidity Calculations and Tools for ICD-9 and ICD-10 Codes


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Documentation for package ‘icd’ version 3.3

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icd-package icd: Comorbidity Calculations and Tools for ICD-9 and ICD-10 Codes
icd10-package icd: Comorbidity Calculations and Tools for ICD-9 and ICD-10 Codes
icd9-package icd: Comorbidity Calculations and Tools for ICD-9 and ICD-10 Codes

-- A --

ahrq AHRQ comorbidities
as.decimal_diag Get or set whether ICD codes have have an attribute indicating 'short' or 'decimal' format
as.icd_decimal_diag Get or set whether ICD codes have have an attribute indicating 'short' or 'decimal' format
as.icd_long_data Convert between and identify 'long' and 'wide' patient data formats
as.icd_short_diag Get or set whether ICD codes have have an attribute indicating 'short' or 'decimal' format
as.icd_wide_data Convert between and identify 'long' and 'wide' patient data formats
as.short_diag Get or set whether ICD codes have have an attribute indicating 'short' or 'decimal' format

-- C --

c.icd10 combine ICD codes
c.icd9 combine ICD codes
categorize_simple Categorize codes according to a mapping
charlson Calculate Charlson Comorbidity Index (Charlson Score)
charlson.data.frame Calculate Charlson Comorbidity Index (Charlson Score)
charlson_from_comorbid Calculate Charlson scores from precomputed Charlson comorbidities
children Get children of ICD codes
children.character Get children of ICD codes
children.icd10 Get children of ICD codes
children.icd10cm Get children of ICD codes
children.icd9 Get children of ICD codes
children.icd9cm Get children of ICD codes
combine combine ICD codes
comorbid Find comorbidities from ICD-9 codes.
comorbid_ahrq Find comorbidities from ICD-9 codes.
comorbid_ccs Find comorbidities from ICD-9 codes.
comorbid_charlson Find comorbidities from ICD-9 codes.
comorbid_df_to_mat convert comorbidity matrix to data frame
comorbid_elix Find comorbidities from ICD-9 codes.
comorbid_hcc Get Hierarchical Condition Codes (HCC)
comorbid_mat_to_df convert comorbidity data frame from matrix
comorbid_pccc_dx Calculate pediatric complex chronic conditions (PCCC) comorbidities
comorbid_pccc_pcs Calculate pediatric complex chronic conditions (PCCC) comorbidities
comorbid_quan_deyo Find comorbidities from ICD-9 codes.
comorbid_quan_elix Find comorbidities from ICD-9 codes.
convert Convert ICD9 codes between formats and structures.
count_codes Count ICD codes or comorbidities for each patient
count_codes_wide Count ICD codes given in wide format
count_comorbid Count number of comorbidities per patient

-- D --

diff_comorbid show the difference between two comorbidity mappings
diff_comorbid.list show the difference between two comorbidity mappings

-- F --

filter_invalid Filter ICD codes by validity.
filter_poa Filters data frame based on present-on-arrival flag
filter_poa_no Filters data frame based on present-on-arrival flag
filter_poa_not_no Filters data frame based on present-on-arrival flag
filter_poa_not_yes Filters data frame based on present-on-arrival flag
filter_poa_yes Filters data frame based on present-on-arrival flag
filter_valid Filter ICD codes by validity.

-- G --

get_defined Select only defined ICD codes

-- I --

icd icd: Comorbidity Calculations and Tools for ICD-9 and ICD-10 Codes
icd10cm2016 ICD-10-CM
icd10_chapters ICD-10 chapters
icd10_comorbid Find comorbidities from ICD-9 codes.
icd10_comorbid_ahrq Find comorbidities from ICD-9 codes.
icd10_comorbid_ccs Find comorbidities from ICD-9 codes.
icd10_comorbid_charlson Find comorbidities from ICD-9 codes.
icd10_comorbid_elix Find comorbidities from ICD-9 codes.
icd10_comorbid_hcc Get Hierarchical Condition Codes (HCC)
icd10_comorbid_pccc_dx Calculate pediatric complex chronic conditions (PCCC) comorbidities
icd10_comorbid_pccc_pcs Calculate pediatric complex chronic conditions (PCCC) comorbidities
icd10_comorbid_quan_deyo Find comorbidities from ICD-9 codes.
icd10_comorbid_quan_elix Find comorbidities from ICD-9 codes.
icd10_filter_invalid Filter ICD codes by validity.
icd10_filter_valid Filter ICD codes by validity.
icd10_map_ahrq AHRQ comorbidities
icd10_map_ahrq_pcs AHRQ ICD-10-PCS categories
icd10_map_cc Medicare Hierarchical Condition Categories
icd10_map_ccs Clinical Classifications Software (CCS) for ICD9/10-CM
icd10_map_charlson Quan adaptation of Deyo/Charlson comorbidities
icd10_map_elix Elixhauser comorbidities
icd10_map_pccc_dx Pediatric Complex Chronic Conditions
icd10_map_pccc_pcs Pediatric Complex Chronic Conditions
icd10_map_quan_deyo Quan adaptation of Deyo/Charlson comorbidities
icd10_map_quan_elix Quan adaptation of Elixhauser comorbidities
icd10_pcs ICD-10-CM Procedure Codes
icd10_sub_chapters ICD-10 sub-chapters
icd9Billable list of annual versions of billable leaf nodes of ICD-9-CM
icd9cm_billable list of annual versions of billable leaf nodes of ICD-9-CM
icd9cm_hierarchy Latest ICD-9-CM diagnosis codes, in flat 'data.frame' format
icd9_chapters ICD-9 chapters
icd9_comorbid Find comorbidities from ICD-9 codes.
icd9_comorbid_ahrq Find comorbidities from ICD-9 codes.
icd9_comorbid_ccs Find comorbidities from ICD-9 codes.
icd9_comorbid_charlson Find comorbidities from ICD-9 codes.
icd9_comorbid_elix Find comorbidities from ICD-9 codes.
icd9_comorbid_hcc Get Hierarchical Condition Codes (HCC)
icd9_comorbid_pccc_dx Calculate pediatric complex chronic conditions (PCCC) comorbidities
icd9_comorbid_pccc_pcs Calculate pediatric complex chronic conditions (PCCC) comorbidities
icd9_comorbid_quan_deyo Find comorbidities from ICD-9 codes.
icd9_comorbid_quan_elix Find comorbidities from ICD-9 codes.
icd9_filter_invalid Filter ICD codes by validity.
icd9_filter_valid Filter ICD codes by validity.
icd9_majors ICD-9 chapters
icd9_map_ahrq AHRQ comorbidities
icd9_map_cc Medicare Hierarchical Condition Categories
icd9_map_charlson Quan adaptation of Deyo/Charlson comorbidities
icd9_map_elix Elixhauser comorbidities
icd9_map_hcc Medicare Hierarchical Condition Categories
icd9_map_multi_ccs Clinical Classifications Software (CCS) for ICD9/10-CM
icd9_map_pccc Pediatric Complex Chronic Conditions
icd9_map_pccc_dx Pediatric Complex Chronic Conditions
icd9_map_pccc_pcs Pediatric Complex Chronic Conditions
icd9_map_quan_deyo Quan adaptation of Deyo/Charlson comorbidities
icd9_map_quan_elix Quan adaptation of Elixhauser comorbidities
icd9_map_single_ccs Clinical Classifications Software (CCS) for ICD9/10-CM
icd9_sub_chapters ICD-9 chapters
icd_charlson Calculate Charlson Comorbidity Index (Charlson Score)
icd_charlson.data.frame Calculate Charlson Comorbidity Index (Charlson Score)
icd_charlson_from_comorbid Calculate Charlson scores from precomputed Charlson comorbidities
icd_children Get children of ICD codes
icd_children.character Get children of ICD codes
icd_children.icd10 Get children of ICD codes
icd_children.icd10cm Get children of ICD codes
icd_children.icd9 Get children of ICD codes
icd_children_defined Get children of ICD codes
icd_children_defined.icd10cm Get children of ICD codes
icd_comorbid Find comorbidities from ICD-9 codes.
icd_comorbid_ahrq Find comorbidities from ICD-9 codes.
icd_comorbid_df_to_mat convert comorbidity matrix to data frame
icd_comorbid_elix Find comorbidities from ICD-9 codes.
icd_comorbid_hcc Find comorbidities from ICD-9 codes.
icd_comorbid_mat_to_df convert comorbidity matrix to data frame
icd_comorbid_quan_deyo Find comorbidities from ICD-9 codes.
icd_comorbid_quan_elix Find comorbidities from ICD-9 codes.
icd_count_codes Count ICD codes or comorbidities for each patient
icd_count_codes_wide Count ICD codes given in wide format
icd_count_comorbid Count ICD codes or comorbidities for each patient
icd_diff_comorbid show the difference between two comorbidity mappings
icd_diff_comorbid.list show the difference between two comorbidity mappings
icd_filter_invalid Filter ICD codes by validity.
icd_filter_poa Filters data frame based on present-on-arrival flag
icd_filter_poa_no Filters data frame based on present-on-arrival flag
icd_filter_poa_not_no Filters data frame based on present-on-arrival flag
icd_filter_poa_not_yes Filters data frame based on present-on-arrival flag
icd_filter_poa_yes Filters data frame based on present-on-arrival flag
icd_filter_valid Filter ICD codes by validity.
icd_get_defined Select only defined ICD codes
icd_get_defined.icd9 Select only defined ICD codes
icd_long_data Convert between and identify 'long' and 'wide' patient data formats
icd_long_to_wide Convert ICD data from long to wide format
icd_map_cc_hcc Medicare Hierarchical Condition Categories
icd_names_ahrq Comorbidity names
icd_names_ahrq_abbrev Comorbidity names
icd_names_ahrq_htn Comorbidity names
icd_names_ahrq_htn_abbrev Comorbidity names
icd_names_cc Comorbidity names
icd_names_charlson Comorbidity names
icd_names_charlson_abbrev Comorbidity names
icd_names_elix Comorbidity names
icd_names_elix_abbrev Comorbidity names
icd_names_elix_htn Comorbidity names
icd_names_elix_htn_abbrev Comorbidity names
icd_names_quan_elix Comorbidity names
icd_names_quan_elix_abbrev Comorbidity names
icd_names_quan_elix_htn Comorbidity names
icd_names_quan_elix_htn_abbrev Comorbidity names
icd_poa_choices Present-on-admission flags
icd_van_walraven Calculate van Walraven Elixhauser Score
icd_van_walraven.data.frame Calculate van Walraven Elixhauser Score
icd_van_walraven_from_comorbid Calculate van Walraven Elixhauser Score
icd_wide_data Convert between and identify 'long' and 'wide' patient data formats
icd_wide_to_long Convert ICD data from wide to long format
is.comorbidity_map test ICD-related classes
is.decimal_diag Get or set whether ICD codes have have an attribute indicating 'short' or 'decimal' format
is.icd10 test ICD-related classes
is.icd10cm test ICD-related classes
is.icd9 test ICD-related classes
is.icd9cm test ICD-related classes
is.icd_comorbidity_map test ICD-related classes
is.icd_decimal_diag Get or set whether ICD codes have have an attribute indicating 'short' or 'decimal' format
is.icd_long_data Convert between and identify 'long' and 'wide' patient data formats
is.icd_short_diag Get or set whether ICD codes have have an attribute indicating 'short' or 'decimal' format
is.icd_wide_data Convert between and identify 'long' and 'wide' patient data formats
is.short_diag Get or set whether ICD codes have have an attribute indicating 'short' or 'decimal' format

-- L --

long_to_wide Convert ICD data from long to wide format

-- N --

names_ahrq Comorbidity names
names_ahrq_abbrev Comorbidity names
names_ahrq_htn Comorbidity names
names_ahrq_htn_abbrev Comorbidity names
names_cc Comorbidity names
names_charlson Comorbidity names
names_charlson_abbrev Comorbidity names
names_elix Comorbidity names
names_elix_abbrev Comorbidity names
names_elix_htn Comorbidity names
names_elix_htn_abbrev Comorbidity names
names_quan_elix Comorbidity names
names_quan_elix_abbrev Comorbidity names
names_quan_elix_htn Comorbidity names
names_quan_elix_htn_abbrev Comorbidity names

-- P --

package-icd icd: Comorbidity Calculations and Tools for ICD-9 and ICD-10 Codes
package-icd10 icd: Comorbidity Calculations and Tools for ICD-9 and ICD-10 Codes
package-icd9 icd: Comorbidity Calculations and Tools for ICD-9 and ICD-10 Codes
poa_choices Present-on-admission flags
print.comorbidity_map Print a comorbidity map

-- S --

subset_icd extract subset from ICD data

-- U --

unzip_single unzip a single file from URL
uranium_pathology United States Transuranium & Uranium Registries

-- V --

van_walraven Calculate van Walraven Elixhauser Score
van_walraven.data.frame Calculate van Walraven Elixhauser Score
van_walraven_from_comorbid Calculate van Walraven Elixhauser Score
vermont_dx Hospital discharge data from Vermont

-- W --

wide_to_long Convert ICD data from wide to long format

-- misc --

[.icd10 extract subset from ICD data
[.icd9 extract subset from ICD data
[[.comorbidity_map Extract vector of codes from an ICD comorbidity map
[[.icd10 extract subset from ICD data
[[.icd9 extract subset from ICD data
_PACKAGE icd: Comorbidity Calculations and Tools for ICD-9 and ICD-10 Codes