This scenario configures Varlociraptor to perform a simple trio pedigree calling. The model is configured with prior assumptions about mutation rate and heterozygosity. Note that you should configure these with your own expetise or via literature research. The values shown here are only examples.
species:
heterozygosity: 0.001
germline-mutation-rate: 1e-3
ploidy:
male:
all: 2
X: 1
Y: 1
female:
all: 2
X: 2
Y: 0
samples:
mother:
sex: female
father:
sex: male
child:
sex: male
inheritance:
mendelian:
from:
- mother
- father
events:
denovo_child: "(child:0.5 | child:1.0) & mother:0.0 & father:0.0"
inherited: "!mother:0.0 | !father:0.0"