Closed AprilYUZhang closed 3 months ago
$ cat pedigree.txt FathersGrandMother 0 0 FathersGrandFather 0 0 MothersGrandMother 0 0 MothersGrandFather 0 0 Mother MothersGrandFather MothersGrandMother Father FathersGrandFather FathersGrandMother Progeny Father Mother
$ cat genotype.txt FathersGrandMother 1 1 1 0 0 0 FathersGrandFather 2 2 2 2 2 2 MothersGrandMother 2 2 2 2 2 2 MothersGrandFather 0 0 0 1 1 1 Mother 1 1 1 2 2 2 Father 2 2 2 1 1 1 Progeny 1 1 1 1 1 1
$ cat test.phased_geno_prob.txt Father 0.0000 0.0000 0.0000 0.0000 0.0000 0.0000 Father 0.0000 0.0000 0.0000 0.0000 0.0000 0.0000 Father 0.0000 0.0000 0.0000 1.0000 1.0000 1.0000 Father 1.0000 1.0000 1.0000 0.0000 0.0000 0.0000 FathersGrandFather 0.0000 0.0000 0.0000 0.0000 0.0000 0.0000 FathersGrandFather 0.0000 0.0000 0.0000 0.0000 0.0000 0.0000 FathersGrandFather 0.0000 0.0000 0.0000 0.0000 0.0000 0.0000 FathersGrandFather 0.9999 0.9999 0.9999 0.9999 0.9999 0.9999 FathersGrandMother 0.0000 0.0000 0.0000 0.9999 1.0000 0.9999 FathersGrandMother 0.3200 0.2001 0.0000 0.0000 0.0000 0.0000 FathersGrandMother 0.6799 0.7999 1.0000 0.0000 0.0000 0.0000 FathersGrandMother 0.0001 0.0001 0.0000 0.0000 0.0000 0.0000 Mother 0.0000 0.0000 0.0000 0.0000 0.0000 0.0000 Mother 1.0000 1.0000 1.0000 0.0000 0.0000 0.0000 Mother 0.0000 0.0000 0.0000 0.0000 0.0000 0.0000 Mother 0.0000 0.0000 0.0000 1.0000 1.0000 1.0000 MothersGrandFather 0.9999 1.0000 0.9999 0.0000 0.0000 0.0000 MothersGrandFather 0.0000 0.0000 0.0000 0.0000 0.2001 0.3200 MothersGrandFather 0.0000 0.0000 0.0000 1.0000 0.7999 0.6799 MothersGrandFather 0.0000 0.0000 0.0000 0.0000 0.0001 0.0001 MothersGrandMother 0.0000 0.0000 0.0000 0.0000 0.0000 0.0000 MothersGrandMother 0.0000 0.0000 0.0000 0.0000 0.0000 0.0000 MothersGrandMother 0.0000 0.0000 0.0000 0.0000 0.0000 0.0000 MothersGrandMother 0.9999 0.9999 0.9999 0.9999 0.9999 0.9999 Progeny 0.0000 0.0000 0.0000 0.0000 0.0000 0.0000 Progeny 0.0000 0.0000 0.0000 1.0000 1.0000 1.0000 Progeny 1.0000 1.0000 1.0000 0.0000 0.0000 0.0000 Progeny 0.0000 0.0000 0.0000 0.0000 0.0000 0.0000
$ cat test.seg_prob.txt Father 0.3400 0.4000 0.4999 0.4000 0.3400 0.3040 Father 0.1600 0.1000 0.0001 0.1000 0.1600 0.1960 Father 0.3400 0.4000 0.4999 0.4000 0.3400 0.3040 Father 0.1600 0.1000 0.0001 0.1000 0.1600 0.1960 FathersGrandFather 0.2500 0.2500 0.2500 0.2500 0.2500 0.2500 FathersGrandFather 0.2500 0.2500 0.2500 0.2500 0.2500 0.2500 FathersGrandFather 0.2500 0.2500 0.2500 0.2500 0.2500 0.2500 FathersGrandFather 0.2500 0.2500 0.2500 0.2500 0.2500 0.2500 FathersGrandMother 0.2500 0.2500 0.2500 0.2500 0.2500 0.2500 FathersGrandMother 0.2500 0.2500 0.2500 0.2500 0.2500 0.2500 FathersGrandMother 0.2500 0.2500 0.2500 0.2500 0.2500 0.2500 FathersGrandMother 0.2500 0.2500 0.2500 0.2500 0.2500 0.2500 Mother 0.3040 0.3400 0.4000 0.4999 0.4000 0.3400 Mother 0.3040 0.3400 0.4000 0.4999 0.4000 0.3400 Mother 0.1960 0.1600 0.1000 0.0001 0.1000 0.1600 Mother 0.1960 0.1600 0.1000 0.0001 0.1000 0.1600 MothersGrandFather 0.2500 0.2500 0.2500 0.2500 0.2500 0.2500 MothersGrandFather 0.2500 0.2500 0.2500 0.2500 0.2500 0.2500 MothersGrandFather 0.2500 0.2500 0.2500 0.2500 0.2500 0.2500 MothersGrandFather 0.2500 0.2500 0.2500 0.2500 0.2500 0.2500 MothersGrandMother 0.2500 0.2500 0.2500 0.2500 0.2500 0.2500 MothersGrandMother 0.2500 0.2500 0.2500 0.2500 0.2500 0.2500 MothersGrandMother 0.2500 0.2500 0.2500 0.2500 0.2500 0.2500 MothersGrandMother 0.2500 0.2500 0.2500 0.2500 0.2500 0.2500 Progeny 0.3677 0.3314 0.2395 0.0877 0.0561 0.0702 Progeny 0.0504 0.0320 0.0328 0.0328 0.0320 0.0504 Progeny 0.5118 0.5805 0.6400 0.6400 0.5805 0.5118 Progeny 0.0702 0.0561 0.0877 0.2395 0.3314 0.3677
It would be great to modify this example to make the segregation probabilities clearer (closer to 0 & 1)
It would be great to modify this example to make the segregation probabilities clearer (closer to 0 & 1)