The FAMILY Procedure
This section describes the displayed output from PROC FAMILY. See the section ODS Table Names for details about how this output interfaces with the Output Delivery System.
The “Family Summary” table lists information about the nuclear families, including the pedigree ID (if listed in the ID statement) and the two parental IDs, and then the following information for each marker locus:
-
number of typed parents
-
number of affected and unaffected children with nonmissing genotypes (when TRAIT statement is used)
-
number of children with nonmissing genotypes (when TRAIT statement is omitted)
-
error code
Note that when SHOWALL is specified in the PROC FAMILY statement, all families and all markers are displayed in the table. Otherwise, only families with a Mendelian genotype error and the marker at which they have the error are included in the table. The error code is an integer that represents a particular type of genotype error that is described in the “Description of Error Codes” table.
The “Description of Error Codes” table provides descriptions for the error codes listed in the “Family Summary” table. The descriptions of the family genotype errors all refer to Mendelian inconsistencies in the child(ren)’s genotypes with the parental genotypes. Error codes 1 through 5 can occur when neither of the parental genotypes for that marker is available (the sibship is the family unit). Codes 6 and 7 can occur for families with exactly one parent genotyped, and error code 8 can occur for families with both parents genotyped.
The “Family X-linked Summary” table lists information about the nuclear families at each of the X-linked markers, including the pedigree ID (if listed in the ID statement) and the father and mother IDs, and then the following information for each marker locus:
-
which, if either, of the parents is typed
-
number of affected and unaffected sons with nonmissing genotypes
-
number of affected and unaffected daughters with nonmissing genotypes
-
error code
Note that when SHOWALL is specified in the PROC FAMILY statement, all families and all X-linked markers are displayed in the table. Otherwise, only families with a Mendelian genotype error and the marker at which they have the error are included in the table. The error code is an integer that represents a particular type of genotype error that is described in the “Description of X-linked Error Codes” table.
The “Description of X-linked Error Codes” table provides descriptions for the error codes listed in the “Family X-linked Summary” table. The descriptions of the family genotype errors all refer to Mendelian inconsistencies in the child(ren)’s genotypes with the parental genotypes. Error codes 1 through 4 can occur when neither of the parental genotypes for that marker is available (the sibship is the family unit); codes 5 and 6 can occur for families with only the maternal genotype missing; codes 7 and 8 can occur for families with only the paternal genotype missing; and error code 9 can occur in families with both parents genotyped. If both parents have the same value for the SEX variable, an error code of 10 is reported.