The filenames are formatted [TRIO_ID][FAMILY_MEMBER_CODE].chr8:61627312.[genotype].pat.gz. The TRIO_ID is the ID of the family of the participant. The FAMILY_MEMBER_CODE is either A, B, or CX where A represents father, B represents mother, C represents child, and X after the C represents the child ID within the family. The genotype is either C or T, indicating all sequenced DNA fragments in the file contained either the C or the T variant. The pat file is formatted like so:
chr8	12699028	CC.CCC	1
chr8	12699028	CCCCCC	49
chr8	12699028	CCCCTC	3
chr8	12699028	CCCTCC	1
chr8	12699028	CTCCCC	1
chr8	12699028	CTCTCC	1
chr8	12699028	CTCTTC	1
chr8	12699028	CTTTTT	1
chr8	12699028	TTTTTC	2
chr8	12699028	TTTTTT	5
Where the columns represent chromosome name, CpG index, methylation pattern, and the count of this pattern. For more information see wgbstools.
