pedigrees: Simulated family pedigrees
In bayesmendel/snipR: Pedigree deduplication

A data set containing family pedigrees, in which some families have duplicates. The data represent pedigrees that are ascertained based on family history, and include information on cancer statuses and ages, genetic testing results, etc. Each family has a FamID; duplicate families will have the same FamID. Each family has a unique RequestID. Hence, the goal of the algorithm is to detect the duplicates, or the families with the same FamID. Within a family, each individual has an ID, and the MotherID and FatherID represent the ID of the mother and father, respectively. A portion of the data set is provided below. The data is mostly in the format for running the Mendelian model PanelPRO (https://projects.iq.harvard.edu/bayesmendel/panelpro).

pedigrees

A data frame with 207,214 rows and 32 variables:

ID: ID for the family member
Sex: 1 for males, 0 for females
MotherID: ID for reported mother
FatherID: ID for reported father
isProband: 1 for proband, 0 otherwise
isAff*: Cancer status (BC = breast cancer, OC = ovarian cancer, COL = colorectal cancer, ENDO = endometrial cancer, PANC = pancreatic cancer, MELA = melanoma)
Age*: Cancer age (BC = breast cancer, OC = ovarian cancer, COL = colorectal cancer, ENDO = endometrial cancer, PANC = pancreatic cancer, MELA = melanoma)
isDead: Death status
BRCA1: BRCA1 testing results (1 = positive, 2 = negative, 0 = untested)
BRCA2: BRCA2 testing results (1 = positive, 2 = negative, 0 = untested)
MLH1: MLH1 testing results (1 = positive, 2 = negative, 0 = untested)
MSH2: MSH2 testing results (1 = positive, 2 = negative, 0 = untested)
MSH6: MSH6 testing results (1 = positive, 2 = negative, 0 = untested)
CDKN2A: CDKN2A testing results (1 = positive, 2 = negative, 0 = untested)
Twins: Twin marker (twins in the family will have the same positive integer)
FamID: True ID for the family
RequestID: Reported ID for the family (true duplicates will have a different RequestID but the same FamID)
Duplicate: 1 if the pedigree has a duplicate
nDuplicates: Number of duplicate pedigrees of the family
relationship: Relationship to proband
famSize: Number of family members in the family