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gowthamrao committed Jan 6, 2024
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4 changes: 2 additions & 2 deletions DESCRIPTION
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Package: PhenotypeLibrary
Type: Package
Title: The OHDSI Phenotype Library
Version: 3.31.0
Date: 2023-11-29
Version: 3.32.0
Date: 2024-01-06
Author: Gowtham Rao [aut, cre]
Maintainer: Gowtham Rao <[email protected]>
Description: A repository to store the content of the OHDSI Phenotype library.
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96 changes: 94 additions & 2 deletions NEWS.md
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The following cohorts were accidentally lost and have to be restored
PhenotypeLibrary 3.32.0
======================
Accepted Cohorts: No cohorts were accepted in this release.

New Cohorts: 56 were added.

1217: [P] Platinum based chemotherapy regimens
1244: [P] Non Platinum chemotherapy regimen
1261: [P] Acute Typical Pneumonia
1262: [P] Asthma or Chronic obstructive pulmonary disease (COPD)
1263: [P] Chronic obstructive pulmonary disease (COPD) without asthma
1264: [P] Pneumonitis and lung infections
1265: [P] Pulmonary hypertension associated with lung diseases and or hypoxia (WHO Group 3)
1266: [P] Non-small cell lung cancer (NSCLC) for first time using ICD0
1267: [P] Lung cancer using ICD0
1268: [P] Lung Resection, adults, inpt stay, no ED, post op new Afib
1269: [P] Pulmonary fibrosis
1270: [P] History of Bladder cancer
1271: [P] Chronic obstructive pulmonary disease (COPD)
1272: [P] Chronic Interstitial lung disease (ILD)
1273: [P] Lung Nodule
1274: [P] Lung Nodule - solitary
1275: [P] Lung Nodule - multiple
1276: [P] Lung Mass (not acute, necrotic, atlectatic, abscess, fibrosis)
1277: [P] Lung Lesion (not acute, necrotic, atlectatic, abscess, fibrosis)
1278: [P] Non Small Cell Lung Cancer (Stage 3)
1279: [P] Non Small Cell Lung Cancer
1280: [P] Small Cell Lung Cancer
1281: [P] Primary Lung Cancer
1282: [P] Hoarseness
1283: [P] Bone Pain
1284: [P] Weight loss
1285: [P] Acute bronchitis
1286: [P] Non Small Cell Lung Cancer (Stage 3) without second diagnosis
1287: [P] Intestinal obstruction - colorectal specific
1288: [P] Intraabdominal abscess - narrow for colorectal cancer
1289: [P] Major Non Cardiac Surgery, adults
1290: [P] Abdominal Aortic Aneurysm repair, adults
1291: [P] Lower Extremity Bypass, adults
1292: [P] Carotid Endarterectomy, adults
1293: [P] Lung Resection, adults
1294: [P] Esophagectomy, adults
1295: [P] Pancreatectomy, adults
1296: [P] Colectomy, adults
1297: [P] Cystectomy, adults
1298: [P] Nephrectomy, adults
1299: [P] Coronary Artery Bypass Graft, adults
1300: [P] Cardiac Valve Surgery, adults
1301: [P] Acute Urinary tract infections UTI events
1303: [P] Acute Heart failure from legend
1304: [P] Major Non Cardiac Surgery, adults, post op new Afib
1305: [P] AAA repair, adults, post op new Afib
1306: [P] Lower Extremity Bypass, adults, post op new Afib
1307: [P] Carotid Endarterectomy, adults, post op new Afib
1308: [P] Lung Resection, adults, post op new Afib
1309: [P] Esophagectomy, adults, post op new Afib
1310: [P] Pancreatectomy, adults, post op new Afib
1311: [P] Colectomy, adults, post op new Afib
1312: [P] Cystectomy, adults, post op new Afib
1313: [P] Nephrectomy, adults, post op new Afib
1314: [P] Coronary Artery Bypass Graft, adults, post op new Afib
1315: [P] Cardiac Valve Surgery, adults, post op new Afib

Note: The following cohorts were accidentally deleted and we restored with new id.

| oldId | newId | Name |
|-------|-------|-------------------------------------------------------------------------------------------|
| 19 | 1261 | [P] Acute Typical Pneumonia |
| 26 | 1262 | [P] Asthma or Chronic obstructive pulmonary disease (COPD) |
| 28 | 1263 | [P] Chronic obstructive pulmonary disease (COPD) without asthma |
| 329 | 1264 | [P] Pneumonitis and lung infections |
| 751 | 1265 | [P] Pulmonary hypertension associated with lung diseases and or hypoxia (WHO Group 3) |
| 786 | 1266 | [P] Non-small cell lung cancer (NSCLC) for first time using ICD0 |
| 787 | 1267 | [P] Lung cancer using ICD0 |
| 1096 | 1268 | [P] Lung Resection, adults, inpt stay, no ED, post op new Afib |
| 1117 | 1269 | [P] Pulmonary fibrosis |
| 1118 | 1270 | [P] History of Bladder cancer |
| 1119 | 1271 | [P] Chronic obstructive pulmonary disease (COPD) |
| 1120 | 1272 | [P] Chronic Interstitial lung disease (ILD) |
| 1128 | 1273 | [P] Lung Nodule |
| 1129 | 1274 | [P] Lung Nodule - solitary |
| 1130 | 1275 | [P] Lung Nodule - multiple |
| 1131 | 1276 | [P] Lung Mass (not acute, necrotic, atelectatic, abscess, fibrosis) |
| 1132 | 1277 | [P] Lung Lesion (not acute, necrotic, atelectatic, abscess, fibrosis) |
| 1133 | 1278 | [P] Non Small Cell Lung Cancer (Stage 3) |
| 1134 | 1279 | [P] Non Small Cell Lung Cancer |
| 1135 | 1280 | [P] Small Cell Lung Cancer |
| 1136 | 1281 | [P] Primary Lung Cancer |
| 1137 | 1282 | [P] Hoarseness |
| 1138 | 1283 | [P] Bone Pain |
| 1139 | 1284 | [P] Weight loss |
| 1218 | 1285 | [P] Acute bronchitis |
| 1232 | 1286 | [P] Non Small Cell Lung Cancer (Stage 3) without second diagnosis |


19, 26, 28, 329, 751, 786, 787, 1096, 1117, 1118, 1119, 1120, 1128, 1129, 1130, 1131, 1132, 1133, 1134, 1135, 1136, 1137, 1138, 1139, 1218, 1232



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1 change: 1 addition & 0 deletions extras/UpdatePhenotypes.R
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Expand Up @@ -351,6 +351,7 @@ cohortRecord <- readRDS("cohortRecord.rds")

cohortRecordAugmented <- c()
for (i in (1:nrow(cohortRecord))) {
print(i)
cohortRecordUnit <- cohortRecord[i, ]

if (!file.exists(file.path(
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