def test_tukeyhsd():
#example multicomp in R p 83
res = '''\
pair diff lwr upr p adj
P-M 8.150000 -10.037586 26.3375861 0.670063958
S-M -3.258333 -21.445919 14.9292527 0.982419709
T-M 23.808333 5.620747 41.9959194 0.006783701
V-M 4.791667 -13.395919 22.9792527 0.931020848
S-P -11.408333 -29.595919 6.7792527 0.360680099
T-P 15.658333 -2.529253 33.8459194 0.113221634
V-P -3.358333 -21.545919 14.8292527 0.980350080
T-S 27.066667 8.879081 45.2542527 0.002027122
V-S 8.050000 -10.137586 26.2375861 0.679824487
V-T -19.016667 -37.204253 -0.8290806 0.037710044
'''
res = np.array([[8.150000, -10.037586, 26.3375861, 0.670063958],
[-3.258333, -21.445919, 14.9292527, 0.982419709],
[23.808333, 5.620747, 41.9959194, 0.006783701],
[4.791667, -13.395919, 22.9792527, 0.931020848],
[-11.408333, -29.595919, 6.7792527, 0.360680099],
[15.658333, -2.529253, 33.8459194, 0.113221634],
[-3.358333, -21.545919, 14.8292527, 0.980350080],
[27.066667, 8.879081, 45.2542527, 0.002027122],
[8.050000, -10.137586, 26.2375861, 0.679824487],
[-19.016667, -37.204253, -0.8290806, 0.037710044]])
m_r = [94.39167, 102.54167, 91.13333, 118.20000, 99.18333]
myres = tukeyhsd(m_r, 6, 110.8, alpha=0.05, df=4)
from numpy.testing import assert_almost_equal, assert_equal
pairs, reject, meandiffs, std_pairs, confint, q_crit = myres[:6]
assert_almost_equal(meandiffs, res[:, 0], decimal=5)
assert_almost_equal(confint, res[:, 1:3], decimal=2)
assert_equal(reject, res[:, 3] < 0.05)
def test_tukeyhsd():
#example multicomp in R p 83
res = '''\
pair diff lwr upr p adj
P-M 8.150000 -10.037586 26.3375861 0.670063958
S-M -3.258333 -21.445919 14.9292527 0.982419709
T-M 23.808333 5.620747 41.9959194 0.006783701
V-M 4.791667 -13.395919 22.9792527 0.931020848
S-P -11.408333 -29.595919 6.7792527 0.360680099
T-P 15.658333 -2.529253 33.8459194 0.113221634
V-P -3.358333 -21.545919 14.8292527 0.980350080
T-S 27.066667 8.879081 45.2542527 0.002027122
V-S 8.050000 -10.137586 26.2375861 0.679824487
V-T -19.016667 -37.204253 -0.8290806 0.037710044
'''
res = np.array([[ 8.150000, -10.037586, 26.3375861, 0.670063958],
[-3.258333, -21.445919, 14.9292527, 0.982419709],
[23.808333, 5.620747, 41.9959194, 0.006783701],
[ 4.791667, -13.395919, 22.9792527, 0.931020848],
[-11.408333, -29.595919, 6.7792527, 0.360680099],
[15.658333, -2.529253, 33.8459194, 0.113221634],
[-3.358333, -21.545919, 14.8292527, 0.980350080],
[27.066667, 8.879081, 45.2542527, 0.002027122],
[ 8.050000, -10.137586, 26.2375861, 0.679824487],
[-19.016667, -37.204253, -0.8290806, 0.037710044]])
m_r = [94.39167, 102.54167, 91.13333, 118.20000, 99.18333]
myres = tukeyhsd(m_r, 6, 110.8, alpha=0.05, df=4)
from numpy.testing import assert_almost_equal, assert_equal
pairs, reject, meandiffs, std_pairs, confint, q_crit = myres[:6]
assert_almost_equal(meandiffs, res[:, 0], decimal=5)
assert_almost_equal(confint, res[:, 1:3], decimal=2)
assert_equal(reject, res[:, 3]<0.05)
def get_thsd(mci, alpha=0.05):
var_ = np.var(mci.groupstats.groupdemean(), ddof=len(mci.groupsunique))
means = mci.groupstats.groupmean
nobs = mci.groupstats.groupnobs
resi = tukeyhsd(means, nobs, var_, df=None, alpha=alpha,
q_crit=qsturng(1-alpha, len(means), (nobs-1).sum()))
#print resi[4]
var2 = (mci.groupstats.groupvarwithin() * (nobs - 1)).sum() \
/ (nobs - 1).sum()
assert_almost_equal(var_, var2, decimal=14)
return resi
def get_thsd(mci, alpha=0.05):
var_ = np.var(mci.groupstats.groupdemean(), ddof=len(mci.groupsunique))
means = mci.groupstats.groupmean
nobs = mci.groupstats.groupnobs
resi = tukeyhsd(means,
nobs,
var_,
df=None,
alpha=alpha,
q_crit=qsturng(1 - alpha, len(means), (nobs - 1).sum()))
#print resi[4]
var2 = (mci.groupstats.groupvarwithin() * (nobs - 1)).sum() \
/ (nobs - 1).sum()
assert_almost_equal(var_, var2, decimal=14)
return resi