def test_xrec():
efam = EvalFamily(fam)
fam.subjects[0].sex = 'female'
fam.subjects[1].sex = 'male'
fam.subjects[2].sex = 'female'
efam.gt_types = [Family.HET, Family.HOM_REF, Family.HOM_ALT]
assert efam.x_rec()
fam.subjects[2].sex = 'male'
efam.gt_types = [Family.HET, Family.HOM_REF, Family.HOM_ALT]
assert efam.x_rec()
fam.subjects[2].sex = 'female'
# mom is hom_alt, but not affected
efam.gt_types = [Family.HOM_ALT, Family.HOM_REF, Family.HOM_ALT]
assert not efam.x_rec()
def test_xrec():
efam = EvalFamily(fam)
fam.subjects[0].sex = 'female'
fam.subjects[1].sex = 'male'
fam.subjects[2].sex = 'female'
efam.gt_types = [Family.HET, Family.HOM_REF, Family.HOM_ALT]
assert efam.x_rec()
fam.subjects[2].sex = 'male'
efam.gt_types = [Family.HET, Family.HOM_REF, Family.HOM_ALT]
assert efam.x_rec()
fam.subjects[2].sex = 'female'
# mom is hom_alt, but not affected
efam.gt_types = [Family.HOM_ALT, Family.HOM_REF, Family.HOM_ALT]
assert not efam.x_rec()
def test_x_rec():
mom = Sample('mom_1239NIH', affected=False, sex='female')
dad = Sample('dad_1240NIH', affected=False, sex='male')
kid_aff = Sample('kidaff_1238NIH', affected=True, sex='female')
kid_aff.mom = mom
kid_aff.dad = dad
efam = EvalFamily(Family([dad, mom, kid_aff], 'oler-trio'))
# mom should be a carrier
efam.gt_types = [Family.HOM_REF, Family.HOM_REF, Family.HOM_ALT]
assert efam.x_rec()
def test_x_rec():
mom = Sample('mom_1239NIH', affected=False, sex='female')
dad = Sample('dad_1240NIH', affected=False, sex='male')
kid_aff = Sample('kidaff_1238NIH', affected=True, sex='female')
kid_aff.mom = mom
kid_aff.dad = dad
efam = EvalFamily(Family([dad, mom, kid_aff], 'oler-trio'))
# mom should be a carrier
efam.gt_types = [Family.HOM_REF, Family.HOM_REF, Family.HOM_ALT]
assert efam.x_rec()
