def test_centroids_eq_groups(self):
exp = [[1.2886811963240687, 1.890538910062923, 1.490527658097728],
[2.17349240061718, 2.3192679626679946, 2.028338553903792]]
exp_stat, _ = f_oneway(*exp)
dm = pcoa(self.eq_mat)
dm = dm.samples
obs = _compute_groups(dm, 'centroid', self.grouping_eq)
self.assertAlmostEqual(obs, exp_stat, places=6)
obs_relab = _compute_groups(dm, 'centroid', self.grouping_eq_relab)
self.assertAlmostEqual(obs_relab, obs, places=6)
def test_centroids_eq_groups(self):
exp = [[1.2886811963240687, 1.890538910062923, 1.490527658097728],
[2.17349240061718, 2.3192679626679946, 2.028338553903792]]
exp_stat, _ = f_oneway(*exp)
dm = pcoa(self.eq_mat)
dm = dm.samples
obs = _compute_groups(dm, 'centroid', self.grouping_eq)
self.assertAlmostEqual(obs, exp_stat, places=6)
obs_relab = _compute_groups(dm, 'centroid', self.grouping_eq_relab)
self.assertAlmostEqual(obs_relab, obs, places=6)
def test_centroids_uneq_groups(self):
"""
the expected result here was calculated by hand
"""
exp = [[2.5847022428144935, 2.285624595858895,
1.7022431146340287],
[1.724817266046108, 1.724817266046108],
[2.4333280644972795, 2.389000390879655,
2.8547180589306036, 3.218568759338847]]
exp_stat, _ = f_oneway(*exp)
dm = pcoa(self.uneq_mat)
dm = dm.samples
obs = _compute_groups(dm, 'centroid', self.grouping_uneq)
self.assertAlmostEqual(obs, exp_stat, places=6)
obs_relab = _compute_groups(dm, 'centroid', self.grouping_uneq_relab)
self.assertAlmostEqual(obs, obs_relab, places=6)
def test_centroids_uneq_groups(self):
"""
the expected result here was calculated by hand
"""
exp = [[2.5847022428144935, 2.285624595858895,
1.7022431146340287],
[1.724817266046108, 1.724817266046108],
[2.4333280644972795, 2.389000390879655,
2.8547180589306036, 3.218568759338847]]
exp_stat, _ = f_oneway(*exp)
dm = pcoa(self.uneq_mat)
dm = dm.samples
obs = _compute_groups(dm, 'centroid', self.grouping_uneq)
self.assertAlmostEqual(obs, exp_stat, places=6)
obs_relab = _compute_groups(dm, 'centroid', self.grouping_uneq_relab)
self.assertAlmostEqual(obs, obs_relab, places=6)
def test_centroids_mixedgroups(self):
exp = [[2.5847022428144935, 2.285624595858895,
1.7022431146340287],
[1.724817266046108, 1.724817266046108],
[2.4333280644972795, 2.389000390879655,
2.8547180589306036, 3.218568759338847]]
dm = pcoa(self.uneq_mat)
dm = dm.samples
exp_stat, _ = f_oneway(*exp)
obs_mixed = _compute_groups(dm, 'centroid', self.grouping_un_mixed)
self.assertAlmostEqual(exp_stat, obs_mixed, places=6)
def test_centroids_mixedgroups(self):
exp = [[2.5847022428144935, 2.285624595858895,
1.7022431146340287],
[1.724817266046108, 1.724817266046108],
[2.4333280644972795, 2.389000390879655,
2.8547180589306036, 3.218568759338847]]
dm = pcoa(self.uneq_mat)
dm = dm.samples
exp_stat, _ = f_oneway(*exp)
obs_mixed = _compute_groups(dm, 'centroid', self.grouping_un_mixed)
self.assertAlmostEqual(exp_stat, obs_mixed, places=6)
def test_centroids_null(self):
dm = pcoa(self.null_mat)
dm = dm.samples
obs_null = _compute_groups(dm, 'centroid', self.grouping_eq)
np.isnan(obs_null)
def test_centroids_null(self):
dm = pcoa(self.null_mat)
dm = dm.samples
obs_null = _compute_groups(dm, 'centroid', self.grouping_eq)
np.isnan(obs_null)