R/ssd_codes/colon_cancer.R
In aarmiller/codeBuildr: This package provides functions for loading project codes
## Codes for colon_cancer
# Description:
desc <- "Colon Cancer"
# Diagnosis codes:
# library(tidyverse)
# tmp <- read_csv("~/OneDrive - University of Iowa/Data/ssd_lists/from_phil/colon_cancer/dx9.csv") %>%
# filter(include==1) %>%
# distinct(code,description) %>%
# left_join(filter(codeBuildr::all_icd_labels,dx_ver==9) %>%
# select(code = dx,desc))
#
# tmp2 <- filter(tmp,is.na(desc)) %>%
# distinct(code,desc=description) %>%
# inner_join(filter(codeBuildr::all_icd_labels,dx_ver==9)) %>%
# select(code=dx,desc)
#
# tmp2 <- bind_rows(tmp %>%
# filter(!is.na(desc)) %>%
# select(code,desc),
# tmp2)
#
# cat(paste0("'",tmp2$code,"',", " #",tmp2$desc),sep="\n")
#
#
# tmp <- read_csv("~/OneDrive - University of Iowa/Data/ssd_lists/from_phil/colon_cancer/dx10.csv") %>%
# filter(include==1) %>%
# distinct(code,description) %>%
# left_join(filter(codeBuildr::all_icd_labels,dx_ver==10) %>%
# select(code = dx,desc))
#
# cat(paste0("'",tmp$code,"',", " #",tmp$desc),sep="\n")
icd9_codes <- as.character((c('78900', #Abdominal pain, unspecified site
'5789', #Hemorrhage of gastrointestinal tract, unspecified
'56989', #Other specified disorders of intestine
'78930', #Abdominal or pelvic swelling, mass, or lump, unspecified site
'5699', #Unspecified disorder of intestine
'78903', #Abdominal pain, right lower quadrant
'7934', #Nonspecific (abnormal) findings on radiological and other examination of gastrointestinal tract
'78939', #Abdominal or pelvic swelling, mass, or lump, other specified site
'78933', #Abdominal or pelvic swelling, mass, or lump, right lower quadrant
'5409', #Acute appendicitis without mention of peritonitis
'78937', #Abdominal or pelvic swelling, mass, or lump, generalized
'5439', #Other and unspecified diseases of appendix
'78934', #Abdominal or pelvic swelling, mass, or lump, left lower quadrant
'78931', #Abdominal or pelvic swelling, mass, or lump, right upper quadrant
'541', #Appendicitis, unqualified
'5400', #Acute appendicitis with generalized peritonitis
'6209', #Unspecified noninflammatory disorder of ovary, fallopian tube, and broad ligament
'20951', #Benign carcinoid tumor of the appendix
'5600', #Intussusception
'5401', #Acute appendicitis with peritoneal abscess
'7877', #Abnormal feces
'78935', #Abdominal or pelvic swelling, mass, or lump, periumbilic
'78932', #Abdominal or pelvic swelling, mass, or lump, left upper quadrant
'542', #Other appendicitis
'7921', #Nonspecific abnormal findings in stool contents
'78907', #Abdominal pain, generalized
'78094', #Early satiety
'5693', #Hemorrhage of rectum and anus
'5781', #Blood in stool
'78799', #Other symptoms involving digestive system
'78909', #Abdominal pain, other specified site
'7515', #Other anomalies of intestine
'5602', #Volvulus
'78960', #Abdominal tenderness, unspecified site
'56200', #Diverticulosis of small intestine (without mention of hemorrhage)
'4558', #Unspecified hemorrhoids with other complication
'56213', #Diverticulitis of colon with hemorrhage
'5647', #Megacolon, other than Hirschsprung's
'7933', #Nonspecific (abnormal) findings on radiological and other examination of biliary tract
'56983', #Perforation of intestine
'5309', #Unspecified disorder of esophagus
'56089', #Other specified intestinal obstruction
'56982', #Ulceration of intestine
'5695', #Abscess of intestine
'56039', #Other impaction of intestine
'7936', #Nonspecific (abnormal) findings on radiological and other examination of abdominal area, including retroperitoneum
'5601', #Paralytic ileus
'5379', #Unspecified disorder of stomach and duodenum
'5679', #Unspecified peritonitis
'9974', #Digestive system complications
'53290', #Duodenal ulcer, unspecified as acute or chronic, without hemorrhage or perforation, without mention of obstruction
'5609', #Unspecified intestinal obstruction
'56889', #Other specified disorders of peritoneum
'99749', #Other digestive system complications
'78321', #Loss of weight
'56211', #Diverticulitis of colon (without mention of hemorrhage)
'2800', #Iron deficiency anemia secondary to blood loss (chronic)
'78904', #Abdominal pain, left lower quadrant
'53510', #Atrophic gastritis, without mention of hemorrhage
'78905', #Abdominal pain, periumbilic
'53560', #Duodenitis, without mention of hemorrhage
'7891', #Hepatomegaly
'7871', #Heartburn
'53019', #Other esophagitis
'53020', #Ulcer of esophagus without bleeding
'5691', #Rectal prolapse
'5560', #Ulcerative (chronic) enterocolitis
'56400', #Constipation, unspecified
'78906', #Abdominal pain, epigastric
'53540', #Other specified gastritis, without mention of hemorrhage
'5680', #Peritoneal adhesions (postoperative) (postinfection)
'56212', #Diverticulosis of colon with hemorrhage
'78703', #Vomiting alone
'56401', #Slow transit constipation
'5552', #Regional enteritis of small intestine with large intestine
'56210', #Diverticulosis of colon (without mention of hemorrhage)
'78901', #Abdominal pain, right upper quadrant
'4550', #Internal hemorrhoids without mention of complication
'53550', #Unspecified gastritis and gastroduodenitis, without mention of hemorrhage
'7873', #Flatulence, eructation, and gas pain
'5690', #Anal and rectal polyp
'53500', #Acute gastritis, without mention of hemorrhage
'53010', #Esophagitis, unspecified
'78902', #Abdominal pain, left upper quadrant
'5531', #Umbilical hernia without mention of obstruction or gangrene
'53789', #Other specified disorders of stomach and duodenum
'2808', #Other specified iron deficiency anemias
'53190', #Gastric ulcer, unspecified as acute or chronic, without mention of hemorrhage or perforation, without mention of obstruction
'56409', #Other constipation
'7949', #Nonspecific abnormal results of other specified function study
'5645', #Functional diarrhea
'5780', #Hematemesis
'5550', #Regional enteritis of small intestine
'4590', #Hemorrhage, unspecified
'53089', #Other specified disorders of esophagus
'5566', #Universal ulcerative (chronic) colitis
'1514', #Malignant neoplasm of body of stomach
'56941', #Ulcer of anus and rectum
'5750', #Acute cholecystitis
'7932', #Nonspecific (abnormal) findings on radiological and other examination of other intrathoracic organs
'5362', #Persistent vomiting
'7867', #Abnormal chest sounds
'5759', #Unspecified disorder of gallbladder
'4556', #Unspecified hemorrhoids without mention of complication
'5368', #Dyspepsia and other specified disorders of function of stomach
'4553', #External hemorrhoids without mention of complication
'2801', #Iron deficiency anemia secondary to inadequate dietary iron intake
'57410', #Calculus of gallbladder with other cholecystitis, without mention of obstruction
'5758', #Other specified disorders of gallbladder
'53390', #Peptic ulcer of unspecified site, unspecified as acute or chronic, without mention of hemorrhage or perforation, without mention of obstruction
'57400', #Calculus of gallbladder with acute cholecystitis, without mention of obstruction
'78760', #Full incontinence of feces
'2859', #Anemia, unspecified
'2809', #Iron deficiency anemia, unspecified
'57420', #Calculus of gallbladder without mention of cholecystitis, without mention of obstruction
'7830', #Anorexia
'7895', #Ascites
'7824', #Jaundice, unspecified, not of newborn
'56489', #Other functional disorders of intestine
'5762', #Obstruction of bile duct
'5720', #Abscess of liver
'1919', #Malignant neoplasm of brain, unspecified
'5650', #Anal fissure
'57511', #Chronic cholecystitis
'78079', #Other malaise and fatigue
'53085', #Barrett's esophagus
'56722', #Peritoneal abscess
'5768', #Other specified disorders of biliary tract
'7822', #Localized superficial swelling, mass, or lump
'57510', #Cholecystitis, unspecified
'04186', #Helicobacter pylori [H. pylori]
'0091', #Colitis, enteritis, and gastroenteritis of presumed infectious origin
'0088' #Intestinal infection due to other organism, not elsewhere classified
)))
icd10_codes <- as.character((c('R109', #Unspecified abdominal pain
'R634', #Abnormal weight loss
'B9681', #Helicobacter pylori [H. pylori] as the cause of diseases classified elsewhere
'K5900', #Constipation, unspecified
'R1011', #Right upper quadrant pain
'R1032', #Left lower quadrant pain
'K2970', #Gastritis, unspecified, without bleeding
'R1010', #Upper abdominal pain, unspecified
'K5901', #Slow transit constipation
'K259', #Gastric ulcer, unspecified as acute or chronic, without hemorrhage or perforation
'R1013', #Epigastric pain
'K5732', #Diverticulitis of large intestine without perforation or abscess without bleeding
'K5909', #Other constipation
'K319', #Disease of stomach and duodenum, unspecified
'K30', #Functional dyspepsia
'R140', #Abdominal distension (gaseous)
'K625', #Hemorrhage of anus and rectum
'K921', #Melena
'R1084', #Generalized abdominal pain
'R1900', #Intra-abdominal and pelvic swelling, mass and lump, unspecified site
'R1030', #Lower abdominal pain, unspecified
'K629', #Disease of anus and rectum, unspecified
'R1012', #Left upper quadrant pain
'R938', #Abnormal findings on diagnostic imaging of other specified body structures
'K209', #Esophagitis, unspecified
'K2960', #Other gastritis without bleeding
'K222', #Esophageal obstruction
'K5289', #Other specified noninfective gastroenteritis and colitis
'R195', #Other fecal abnormalities
'K5720', #Diverticulitis of large intestine with perforation and abscess without bleeding
'R198', #Other specified symptoms and signs involving the digestive system and abdomen
'K641', #Second degree hemorrhoids
'K529', #Noninfective gastroenteritis and colitis, unspecified
'K6289', #Other specified diseases of anus and rectum
'K5790', #Diverticulosis of intestine, part unspecified, without perforation or abscess without bleeding
'K3189', #Other diseases of stomach and duodenum
'K5730', #Diverticulosis of large intestine without perforation or abscess without bleeding
'K648', #Other hemorrhoids
'K2950', #Unspecified chronic gastritis without bleeding
'K649', #Unspecified hemorrhoids
'R1033', #Periumbilical pain
'K429', #Umbilical hernia without obstruction or gangrene
'K828', #Other specified diseases of gallbladder
'A09', #Infectious gastroenteritis and colitis, unspecified
'R799', #Abnormal finding of blood chemistry, unspecified
'K640', #First degree hemorrhoids
'R194', #Change in bowel habit
'R935', #Abnormal findings on diagnostic imaging of other abdominal regions, including retroperitoneum
'K449', #Diaphragmatic hernia without obstruction or gangrene
'R9389', #Abnormal findings on diagnostic imaging of other specified body structures
'R1909', #Other intra-abdominal and pelvic swelling, mass and lump
'K5780', #Diverticulitis of intestine, part unspecified, with perforation and abscess without bleeding
'K2270', #Barrett's esophagus without dysplasia
'R932', #Abnormal findings on diagnostic imaging of liver and biliary tract
'K668', #Other specified disorders of peritoneum
'C49A2', #Gastrointestinal stromal tumor of stomach
'N3090', #Cystitis, unspecified without hematuria
'K56609', #Unspecified intestinal obstruction, unspecified as to partial versus complete obstruction
'K6389', #Other specified diseases of intestine
'K639', #Disease of intestine, unspecified
'K922', #Gastrointestinal hemorrhage, unspecified
'R933', #Abnormal findings on diagnostic imaging of other parts of digestive tract
'R1031', #Right lower quadrant pain
'K5660', #Unspecified intestinal obstruction
'Z1159', #Encounter for screening for other viral diseases
'K5669', #Other intestinal obstruction
'K3580', #Unspecified acute appendicitis
'R1903', #Right lower quadrant abdominal swelling, mass and lump
'K388', #Other specified diseases of appendix
'K56690', #Other partial intestinal obstruction
'K567', #Ileus, unspecified
'K56600', #Partial intestinal obstruction, unspecified as to cause
'K633', #Ulcer of intestine
'R1907', #Generalized intra-abdominal and pelvic swelling, mass and lump
'Z03818', #Encounter for observation for suspected exposure to other biological agents ruled out
'K631', #Perforation of intestine (nontraumatic)
'R100', #Acute abdomen
'R591', #Generalized enlarged lymph nodes
'K561', #Intussusception
'K389', #Disease of appendix, unspecified
'K37', #Unspecified appendicitis
'K2980', #Duodenitis without bleeding
'R12', #Heartburn
'R17', #Unspecified jaundice
'R222', #Localized swelling, mass and lump, trunk
'K228', #Other specified diseases of esophagus
'I4510', #Unspecified right bundle-branch block
'K920', #Hematemesis
'R58', #Hemorrhage, not elsewhere classified
'J181', #Lobar pneumonia, unspecified organism
'K352', #Acute appendicitis with generalized peritonitis
'K3532', #Acute appendicitis with perforation and localized peritonitis, without abscess
'K591', #Functional diarrhea
'R1904', #Left lower quadrant abdominal swelling, mass and lump
'K353', #Acute appendicitis with localized peritonitis
'R10813', #Right lower quadrant abdominal tenderness
'K626', #Ulcer of anus and rectum
'K660', #Peritoneal adhesions (postprocedural) (postinfection)
'N949', #Unspecified condition associated with female genital organs and menstrual cycle
'R1901', #Right upper quadrant abdominal swelling, mass and lump
'R948', #Abnormal results of function studies of other organs and systems
'N858', #Other specified noninflammatory disorders of uterus
'K2930', #Chronic superficial gastritis without bleeding
'D121', #Benign neoplasm of appendix
'D3A020', #Benign carcinoid tumor of the appendix
'K5731', #Diverticulosis of large intestine without perforation or abscess with bleeding
'K5641', #Fecal impaction
'R1319', #Other dysphagia
'K5100', #Ulcerative (chronic) pancolitis without complications
'K580', #Irritable bowel syndrome with diarrhea
'K8050', #Calculus of bile duct without cholangitis or cholecystitis without obstruction
'R229', #Localized swelling, mass and lump, unspecified
'N83202', #Unspecified ovarian cyst, left side
'K4020', #Bilateral inguinal hernia, without obstruction or gangrene, not specified as recurrent
'K5010', #Crohn's disease of large intestine without complications
'K623', #Rectal prolapse
'K624', #Stenosis of anus and rectum
'N83201', #Unspecified ovarian cyst, right side
'K5000', #Crohn's disease of small intestine without complications
'K824', #Cholesterolosis of gallbladder
'E668', #Other obesity
'K3533', #Acute appendicitis with perforation and localized peritonitis, with abscess
'R10811', #Right upper quadrant abdominal tenderness
'K2940', #Chronic atrophic gastritis without bleeding
'K316', #Fistula of stomach and duodenum
'K469', #Unspecified abdominal hernia without obstruction or gangrene
'K659', #Peritonitis, unspecified
'K269', #Duodenal ulcer, unspecified as acute or chronic, without hemorrhage or perforation
'K279', #Peptic ulcer, site unspecified, unspecified as acute or chronic, without hemorrhage or perforation
'K3530', #Acute appendicitis with localized peritonitis, without perforation or gangrene
'R1902', #Left upper quadrant abdominal swelling, mass and lump
'A084', #Viral intestinal infection, unspecified
'R599', #Enlarged lymph nodes, unspecified
'R161', #Splenomegaly, not elsewhere classified
'A0472', #Enterocolitis due to Clostridium difficile, not specified as recurrent
'K838', #Other specified diseases of biliary tract
'R159', #Full incontinence of feces
'K210', #Gastro-esophageal reflux disease with esophagitis
'E611', #Iron deficiency
'R945', #Abnormal results of liver function studies
'K589', #Irritable bowel syndrome without diarrhea
'K5090', #Crohn's disease, unspecified, without complications
'D6489', #Other specified anemias
'K750', #Abscess of liver
'K5190', #Ulcerative colitis, unspecified, without complications
'D638' #Anemia in other chronic diseases classified elsewhere
)))
# Procedure codes:
pr_codes_icd9 <- c()
pr_codes_icd10 <- c()
pr_codes_cpt <- c()
# Medication codes
rx_codes <- c()
aarmiller/codeBuildr documentation built on April 14, 2025, 1:59 p.m.
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## Codes for colon_cancer
# Description:
desc <- "Colon Cancer"
# Diagnosis codes:
# library(tidyverse)
# tmp <- read_csv("~/OneDrive - University of Iowa/Data/ssd_lists/from_phil/colon_cancer/dx9.csv") %>%
# filter(include==1) %>%
# distinct(code,description) %>%
# left_join(filter(codeBuildr::all_icd_labels,dx_ver==9) %>%
# select(code = dx,desc))
#
# tmp2 <- filter(tmp,is.na(desc)) %>%
# distinct(code,desc=description) %>%
# inner_join(filter(codeBuildr::all_icd_labels,dx_ver==9)) %>%
# select(code=dx,desc)
#
# tmp2 <- bind_rows(tmp %>%
# filter(!is.na(desc)) %>%
# select(code,desc),
# tmp2)
#
# cat(paste0("'",tmp2$code,"',", " #",tmp2$desc),sep="\n")
#
#
# tmp <- read_csv("~/OneDrive - University of Iowa/Data/ssd_lists/from_phil/colon_cancer/dx10.csv") %>%
# filter(include==1) %>%
# distinct(code,description) %>%
# left_join(filter(codeBuildr::all_icd_labels,dx_ver==10) %>%
# select(code = dx,desc))
#
# cat(paste0("'",tmp$code,"',", " #",tmp$desc),sep="\n")
icd9_codes <- as.character((c('78900', #Abdominal pain, unspecified site
'5789', #Hemorrhage of gastrointestinal tract, unspecified
'56989', #Other specified disorders of intestine
'78930', #Abdominal or pelvic swelling, mass, or lump, unspecified site
'5699', #Unspecified disorder of intestine
'78903', #Abdominal pain, right lower quadrant
'7934', #Nonspecific (abnormal) findings on radiological and other examination of gastrointestinal tract
'78939', #Abdominal or pelvic swelling, mass, or lump, other specified site
'78933', #Abdominal or pelvic swelling, mass, or lump, right lower quadrant
'5409', #Acute appendicitis without mention of peritonitis
'78937', #Abdominal or pelvic swelling, mass, or lump, generalized
'5439', #Other and unspecified diseases of appendix
'78934', #Abdominal or pelvic swelling, mass, or lump, left lower quadrant
'78931', #Abdominal or pelvic swelling, mass, or lump, right upper quadrant
'541', #Appendicitis, unqualified
'5400', #Acute appendicitis with generalized peritonitis
'6209', #Unspecified noninflammatory disorder of ovary, fallopian tube, and broad ligament
'20951', #Benign carcinoid tumor of the appendix
'5600', #Intussusception
'5401', #Acute appendicitis with peritoneal abscess
'7877', #Abnormal feces
'78935', #Abdominal or pelvic swelling, mass, or lump, periumbilic
'78932', #Abdominal or pelvic swelling, mass, or lump, left upper quadrant
'542', #Other appendicitis
'7921', #Nonspecific abnormal findings in stool contents
'78907', #Abdominal pain, generalized
'78094', #Early satiety
'5693', #Hemorrhage of rectum and anus
'5781', #Blood in stool
'78799', #Other symptoms involving digestive system
'78909', #Abdominal pain, other specified site
'7515', #Other anomalies of intestine
'5602', #Volvulus
'78960', #Abdominal tenderness, unspecified site
'56200', #Diverticulosis of small intestine (without mention of hemorrhage)
'4558', #Unspecified hemorrhoids with other complication
'56213', #Diverticulitis of colon with hemorrhage
'5647', #Megacolon, other than Hirschsprung's
'7933', #Nonspecific (abnormal) findings on radiological and other examination of biliary tract
'56983', #Perforation of intestine
'5309', #Unspecified disorder of esophagus
'56089', #Other specified intestinal obstruction
'56982', #Ulceration of intestine
'5695', #Abscess of intestine
'56039', #Other impaction of intestine
'7936', #Nonspecific (abnormal) findings on radiological and other examination of abdominal area, including retroperitoneum
'5601', #Paralytic ileus
'5379', #Unspecified disorder of stomach and duodenum
'5679', #Unspecified peritonitis
'9974', #Digestive system complications
'53290', #Duodenal ulcer, unspecified as acute or chronic, without hemorrhage or perforation, without mention of obstruction
'5609', #Unspecified intestinal obstruction
'56889', #Other specified disorders of peritoneum
'99749', #Other digestive system complications
'78321', #Loss of weight
'56211', #Diverticulitis of colon (without mention of hemorrhage)
'2800', #Iron deficiency anemia secondary to blood loss (chronic)
'78904', #Abdominal pain, left lower quadrant
'53510', #Atrophic gastritis, without mention of hemorrhage
'78905', #Abdominal pain, periumbilic
'53560', #Duodenitis, without mention of hemorrhage
'7891', #Hepatomegaly
'7871', #Heartburn
'53019', #Other esophagitis
'53020', #Ulcer of esophagus without bleeding
'5691', #Rectal prolapse
'5560', #Ulcerative (chronic) enterocolitis
'56400', #Constipation, unspecified
'78906', #Abdominal pain, epigastric
'53540', #Other specified gastritis, without mention of hemorrhage
'5680', #Peritoneal adhesions (postoperative) (postinfection)
'56212', #Diverticulosis of colon with hemorrhage
'78703', #Vomiting alone
'56401', #Slow transit constipation
'5552', #Regional enteritis of small intestine with large intestine
'56210', #Diverticulosis of colon (without mention of hemorrhage)
'78901', #Abdominal pain, right upper quadrant
'4550', #Internal hemorrhoids without mention of complication
'53550', #Unspecified gastritis and gastroduodenitis, without mention of hemorrhage
'7873', #Flatulence, eructation, and gas pain
'5690', #Anal and rectal polyp
'53500', #Acute gastritis, without mention of hemorrhage
'53010', #Esophagitis, unspecified
'78902', #Abdominal pain, left upper quadrant
'5531', #Umbilical hernia without mention of obstruction or gangrene
'53789', #Other specified disorders of stomach and duodenum
'2808', #Other specified iron deficiency anemias
'53190', #Gastric ulcer, unspecified as acute or chronic, without mention of hemorrhage or perforation, without mention of obstruction
'56409', #Other constipation
'7949', #Nonspecific abnormal results of other specified function study
'5645', #Functional diarrhea
'5780', #Hematemesis
'5550', #Regional enteritis of small intestine
'4590', #Hemorrhage, unspecified
'53089', #Other specified disorders of esophagus
'5566', #Universal ulcerative (chronic) colitis
'1514', #Malignant neoplasm of body of stomach
'56941', #Ulcer of anus and rectum
'5750', #Acute cholecystitis
'7932', #Nonspecific (abnormal) findings on radiological and other examination of other intrathoracic organs
'5362', #Persistent vomiting
'7867', #Abnormal chest sounds
'5759', #Unspecified disorder of gallbladder
'4556', #Unspecified hemorrhoids without mention of complication
'5368', #Dyspepsia and other specified disorders of function of stomach
'4553', #External hemorrhoids without mention of complication
'2801', #Iron deficiency anemia secondary to inadequate dietary iron intake
'57410', #Calculus of gallbladder with other cholecystitis, without mention of obstruction
'5758', #Other specified disorders of gallbladder
'53390', #Peptic ulcer of unspecified site, unspecified as acute or chronic, without mention of hemorrhage or perforation, without mention of obstruction
'57400', #Calculus of gallbladder with acute cholecystitis, without mention of obstruction
'78760', #Full incontinence of feces
'2859', #Anemia, unspecified
'2809', #Iron deficiency anemia, unspecified
'57420', #Calculus of gallbladder without mention of cholecystitis, without mention of obstruction
'7830', #Anorexia
'7895', #Ascites
'7824', #Jaundice, unspecified, not of newborn
'56489', #Other functional disorders of intestine
'5762', #Obstruction of bile duct
'5720', #Abscess of liver
'1919', #Malignant neoplasm of brain, unspecified
'5650', #Anal fissure
'57511', #Chronic cholecystitis
'78079', #Other malaise and fatigue
'53085', #Barrett's esophagus
'56722', #Peritoneal abscess
'5768', #Other specified disorders of biliary tract
'7822', #Localized superficial swelling, mass, or lump
'57510', #Cholecystitis, unspecified
'04186', #Helicobacter pylori [H. pylori]
'0091', #Colitis, enteritis, and gastroenteritis of presumed infectious origin
'0088' #Intestinal infection due to other organism, not elsewhere classified
)))
icd10_codes <- as.character((c('R109', #Unspecified abdominal pain
'R634', #Abnormal weight loss
'B9681', #Helicobacter pylori [H. pylori] as the cause of diseases classified elsewhere
'K5900', #Constipation, unspecified
'R1011', #Right upper quadrant pain
'R1032', #Left lower quadrant pain
'K2970', #Gastritis, unspecified, without bleeding
'R1010', #Upper abdominal pain, unspecified
'K5901', #Slow transit constipation
'K259', #Gastric ulcer, unspecified as acute or chronic, without hemorrhage or perforation
'R1013', #Epigastric pain
'K5732', #Diverticulitis of large intestine without perforation or abscess without bleeding
'K5909', #Other constipation
'K319', #Disease of stomach and duodenum, unspecified
'K30', #Functional dyspepsia
'R140', #Abdominal distension (gaseous)
'K625', #Hemorrhage of anus and rectum
'K921', #Melena
'R1084', #Generalized abdominal pain
'R1900', #Intra-abdominal and pelvic swelling, mass and lump, unspecified site
'R1030', #Lower abdominal pain, unspecified
'K629', #Disease of anus and rectum, unspecified
'R1012', #Left upper quadrant pain
'R938', #Abnormal findings on diagnostic imaging of other specified body structures
'K209', #Esophagitis, unspecified
'K2960', #Other gastritis without bleeding
'K222', #Esophageal obstruction
'K5289', #Other specified noninfective gastroenteritis and colitis
'R195', #Other fecal abnormalities
'K5720', #Diverticulitis of large intestine with perforation and abscess without bleeding
'R198', #Other specified symptoms and signs involving the digestive system and abdomen
'K641', #Second degree hemorrhoids
'K529', #Noninfective gastroenteritis and colitis, unspecified
'K6289', #Other specified diseases of anus and rectum
'K5790', #Diverticulosis of intestine, part unspecified, without perforation or abscess without bleeding
'K3189', #Other diseases of stomach and duodenum
'K5730', #Diverticulosis of large intestine without perforation or abscess without bleeding
'K648', #Other hemorrhoids
'K2950', #Unspecified chronic gastritis without bleeding
'K649', #Unspecified hemorrhoids
'R1033', #Periumbilical pain
'K429', #Umbilical hernia without obstruction or gangrene
'K828', #Other specified diseases of gallbladder
'A09', #Infectious gastroenteritis and colitis, unspecified
'R799', #Abnormal finding of blood chemistry, unspecified
'K640', #First degree hemorrhoids
'R194', #Change in bowel habit
'R935', #Abnormal findings on diagnostic imaging of other abdominal regions, including retroperitoneum
'K449', #Diaphragmatic hernia without obstruction or gangrene
'R9389', #Abnormal findings on diagnostic imaging of other specified body structures
'R1909', #Other intra-abdominal and pelvic swelling, mass and lump
'K5780', #Diverticulitis of intestine, part unspecified, with perforation and abscess without bleeding
'K2270', #Barrett's esophagus without dysplasia
'R932', #Abnormal findings on diagnostic imaging of liver and biliary tract
'K668', #Other specified disorders of peritoneum
'C49A2', #Gastrointestinal stromal tumor of stomach
'N3090', #Cystitis, unspecified without hematuria
'K56609', #Unspecified intestinal obstruction, unspecified as to partial versus complete obstruction
'K6389', #Other specified diseases of intestine
'K639', #Disease of intestine, unspecified
'K922', #Gastrointestinal hemorrhage, unspecified
'R933', #Abnormal findings on diagnostic imaging of other parts of digestive tract
'R1031', #Right lower quadrant pain
'K5660', #Unspecified intestinal obstruction
'Z1159', #Encounter for screening for other viral diseases
'K5669', #Other intestinal obstruction
'K3580', #Unspecified acute appendicitis
'R1903', #Right lower quadrant abdominal swelling, mass and lump
'K388', #Other specified diseases of appendix
'K56690', #Other partial intestinal obstruction
'K567', #Ileus, unspecified
'K56600', #Partial intestinal obstruction, unspecified as to cause
'K633', #Ulcer of intestine
'R1907', #Generalized intra-abdominal and pelvic swelling, mass and lump
'Z03818', #Encounter for observation for suspected exposure to other biological agents ruled out
'K631', #Perforation of intestine (nontraumatic)
'R100', #Acute abdomen
'R591', #Generalized enlarged lymph nodes
'K561', #Intussusception
'K389', #Disease of appendix, unspecified
'K37', #Unspecified appendicitis
'K2980', #Duodenitis without bleeding
'R12', #Heartburn
'R17', #Unspecified jaundice
'R222', #Localized swelling, mass and lump, trunk
'K228', #Other specified diseases of esophagus
'I4510', #Unspecified right bundle-branch block
'K920', #Hematemesis
'R58', #Hemorrhage, not elsewhere classified
'J181', #Lobar pneumonia, unspecified organism
'K352', #Acute appendicitis with generalized peritonitis
'K3532', #Acute appendicitis with perforation and localized peritonitis, without abscess
'K591', #Functional diarrhea
'R1904', #Left lower quadrant abdominal swelling, mass and lump
'K353', #Acute appendicitis with localized peritonitis
'R10813', #Right lower quadrant abdominal tenderness
'K626', #Ulcer of anus and rectum
'K660', #Peritoneal adhesions (postprocedural) (postinfection)
'N949', #Unspecified condition associated with female genital organs and menstrual cycle
'R1901', #Right upper quadrant abdominal swelling, mass and lump
'R948', #Abnormal results of function studies of other organs and systems
'N858', #Other specified noninflammatory disorders of uterus
'K2930', #Chronic superficial gastritis without bleeding
'D121', #Benign neoplasm of appendix
'D3A020', #Benign carcinoid tumor of the appendix
'K5731', #Diverticulosis of large intestine without perforation or abscess with bleeding
'K5641', #Fecal impaction
'R1319', #Other dysphagia
'K5100', #Ulcerative (chronic) pancolitis without complications
'K580', #Irritable bowel syndrome with diarrhea
'K8050', #Calculus of bile duct without cholangitis or cholecystitis without obstruction
'R229', #Localized swelling, mass and lump, unspecified
'N83202', #Unspecified ovarian cyst, left side
'K4020', #Bilateral inguinal hernia, without obstruction or gangrene, not specified as recurrent
'K5010', #Crohn's disease of large intestine without complications
'K623', #Rectal prolapse
'K624', #Stenosis of anus and rectum
'N83201', #Unspecified ovarian cyst, right side
'K5000', #Crohn's disease of small intestine without complications
'K824', #Cholesterolosis of gallbladder
'E668', #Other obesity
'K3533', #Acute appendicitis with perforation and localized peritonitis, with abscess
'R10811', #Right upper quadrant abdominal tenderness
'K2940', #Chronic atrophic gastritis without bleeding
'K316', #Fistula of stomach and duodenum
'K469', #Unspecified abdominal hernia without obstruction or gangrene
'K659', #Peritonitis, unspecified
'K269', #Duodenal ulcer, unspecified as acute or chronic, without hemorrhage or perforation
'K279', #Peptic ulcer, site unspecified, unspecified as acute or chronic, without hemorrhage or perforation
'K3530', #Acute appendicitis with localized peritonitis, without perforation or gangrene
'R1902', #Left upper quadrant abdominal swelling, mass and lump
'A084', #Viral intestinal infection, unspecified
'R599', #Enlarged lymph nodes, unspecified
'R161', #Splenomegaly, not elsewhere classified
'A0472', #Enterocolitis due to Clostridium difficile, not specified as recurrent
'K838', #Other specified diseases of biliary tract
'R159', #Full incontinence of feces
'K210', #Gastro-esophageal reflux disease with esophagitis
'E611', #Iron deficiency
'R945', #Abnormal results of liver function studies
'K589', #Irritable bowel syndrome without diarrhea
'K5090', #Crohn's disease, unspecified, without complications
'D6489', #Other specified anemias
'K750', #Abscess of liver
'K5190', #Ulcerative colitis, unspecified, without complications
'D638' #Anemia in other chronic diseases classified elsewhere
)))
# Procedure codes:
pr_codes_icd9 <- c()
pr_codes_icd10 <- c()
pr_codes_cpt <- c()
# Medication codes
rx_codes <- c()
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