-
Notifications
You must be signed in to change notification settings - Fork 0
/
example_pedigree.txt
40 lines (34 loc) · 1.29 KB
/
example_pedigree.txt
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
# example pedigree definition input file
# suggestion: pairwise comparisons labels and individual IDs should be simple and not contain spaces or special characters)
# first define individuals in pedigree (each with unique ID)
INDIVIDUALS
father
mother
child1
child2
wife
gchild
cousin
husband
inbred
stepmom
halfsib
# next define offspring relationships
RELATIONSHIPS
child1=repro(father,mother)
child2=repro(father,mother)
gchild=repro(child1,wife)
cousin=repro(child2,husband)
inbred=repro(child1,child2)
halfsib=repro(child1,stepmom)
# finally, define pairwise comparisons for which to calculate/output genetic distances and later perform plotting
COMPARISONS
Inbred_self=compare(inbred,inbred) # IDENTICAL RELATIONSHIP (inbred offspring of siblings)
Twins_or_self=compare(father,father) # IDENTICAL RELATIONSHIP
Parent_child=compare(father,child1) # PARENT-CHILD RELATIONSHIP
Siblings=compare(child1,child2) # SIBLING RELATIONSHIP
GPGC=compare(mother,cousin) # GRANDPARENT-GRANDCHILD RELATIONSHIP
Avuncular=compare(child2,gchild) # AVUNCULAR RELATIONSHIP
Half-siblings=compare(gchild,halfsib) # HALF-SIBLING RELATIONSHIP
Cousins=compare(cousin,gchild) # COUSIN RELATIONSHIP
Unrelated=compare(father,mother) # UNRELATED RELATIONSHIP