本文整理汇总了Python中skbio.stats.composition.ancom函数的典型用法代码示例。如果您正苦于以下问题：Python ancom函数的具体用法？Python ancom怎么用？Python ancom使用的例子？那么恭喜您, 这里精选的函数代码示例或许可以为您提供帮助。
在下文中一共展示了ancom函数的20个代码示例，这些例子默认根据受欢迎程度排序。您可以为喜欢或者感觉有用的代码点赞，您的评价将有助于我们的系统推荐出更棒的Python代码示例。
示例1: test_ancom_tau
def test_ancom_tau(self):
exp1 = pd.DataFrame({'W': np.array([8, 7, 3, 3, 7, 3, 3, 3, 3]),
'reject': np.array([True, False, False, False,
False, False, False, False,
False], dtype=bool)})
exp2 = pd.DataFrame({'W': np.array([17, 17, 5, 6, 16, 5, 7, 5,
4, 5, 8, 4, 5, 16, 5, 11, 4, 6]),
'reject': np.array([True, True, False, False,
True, False, False, False,
False, False, False, False,
False, True, False, False,
False, False], dtype=bool)})
exp3 = pd.DataFrame({'W': np.array([16, 16, 17, 10, 17, 16, 16,
15, 15, 15, 13, 10, 10, 10,
9, 9, 9, 9]),
'reject': np.array([True, True, True, False,
True, True, True, True,
True, True, True, False,
False, False, False, False,
False, False], dtype=bool)})
result1 = ancom(self.table4, self.cats4, tau=0.25)
result2 = ancom(self.table9, self.cats9, tau=0.02)
result3 = ancom(self.table10, self.cats10, tau=0.02)
assert_data_frame_almost_equal(result1, exp1)
assert_data_frame_almost_equal(result2, exp2)
assert_data_frame_almost_equal(result3, exp3)
开发者ID:anderspitman，项目名称:scikit-bio，代码行数:28，代码来源:test_composition.py
示例2: test_ancom_tau
def test_ancom_tau(self):
exp1 = pd.DataFrame(
{'W': np.array([8, 7, 3, 3, 7, 3, 3, 3, 3]),
'Reject null hypothesis': np.array([True, False, False, False,
False, False, False, False,
False], dtype=bool)})
exp2 = pd.DataFrame(
{'W': np.array([17, 17, 5, 6, 16, 5, 7, 5,
4, 5, 8, 4, 5, 16, 5, 11, 4, 6]),
'Reject null hypothesis': np.array([True, True, False, False,
True, False, False, False,
False, False, False, False,
False, True, False, False,
False, False], dtype=bool)})
exp3 = pd.DataFrame(
{'W': np.array([16, 16, 17, 10, 17, 16, 16,
15, 15, 15, 13, 10, 10, 10,
9, 9, 9, 9]),
'Reject null hypothesis': np.array([True, True, True, False,
True, True, True, True,
True, True, True, False,
False, False, False, False,
False, False], dtype=bool)})
result1 = ancom(self.table4, self.cats4,
multiple_comparisons_correction=None, tau=0.25)
result2 = ancom(self.table9, self.cats9,
multiple_comparisons_correction=None, tau=0.02)
result3 = ancom(self.table10, self.cats10,
multiple_comparisons_correction=None, tau=0.02)
assert_data_frame_almost_equal(result1[0], exp1)
assert_data_frame_almost_equal(result2[0], exp2)
assert_data_frame_almost_equal(result3[0], exp3)
开发者ID:disulfidebond，项目名称:scikit-bio，代码行数:34，代码来源:test_composition.py
示例3: test_ancom_duplicate_percentiles
def test_ancom_duplicate_percentiles(self):
table = pd.DataFrame([[12],
[9],
[1],
[22],
[20],
[23]],
index=['s1', 's2', 's3', 's4', 's5', 's6'],
columns=['b1'])
grouping = pd.Series(['a', 'a', 'a', 'b', 'b', 'b'],
index=['s1', 's2', 's3', 's4', 's5', 's6'])
with self.assertRaises(ValueError):
ancom(table, grouping, percentiles=[10.0, 10.0])
开发者ID:disulfidebond，项目名称:scikit-bio，代码行数:13，代码来源:test_composition.py
示例4: test_ancom_no_signal
def test_ancom_no_signal(self):
result = ancom(self.table3,
self.cats3,
multiple_comparisons_correction=None)
exp = pd.DataFrame({'W': np.array([0]*7),
'reject': np.array([False]*7, dtype=bool)})
assert_data_frame_almost_equal(result, exp)
开发者ID:anderspitman，项目名称:scikit-bio，代码行数:7，代码来源:test_composition.py
示例5: test_ancom_percentile_order_unimportant
def test_ancom_percentile_order_unimportant(self):
table = pd.DataFrame([[12],
[9],
[1],
[22],
[20],
[23]],
index=['s1', 's2', 's3', 's4', 's5', 's6'],
columns=['b1'])
grouping = pd.Series(['a', 'a', 'a', 'b', 'b', 'b'],
index=['s1', 's2', 's3', 's4', 's5', 's6'])
# order of percentiles in unimportant after sorting
result1 = ancom(table, grouping, percentiles=[50.0, 42.0])[1]
result2 = ancom(table, grouping, percentiles=[42.0, 50.0])[1]
assert_data_frame_almost_equal(
result1.sort_index(axis=1), result2.sort_index(axis=1))
开发者ID:disulfidebond，项目名称:scikit-bio，代码行数:16，代码来源:test_composition.py
示例6: test_ancom_percentiles
def test_ancom_percentiles(self):
table = pd.DataFrame([[12, 11],
[9, 11],
[1, 11],
[22, 100],
[20, 53],
[23, 1]],
index=['s1', 's2', 's3', 's4', 's5', 's6'],
columns=['b1', 'b2'])
grouping = pd.Series(['a', 'a', 'a', 'b', 'b', 'b'],
index=['s1', 's2', 's3', 's4', 's5', 's6'])
percentiles = [0.0, 25.0, 50.0, 75.0, 100.0]
groups = ['a', 'b']
tuples = [(p, g) for g in groups for p in percentiles]
exp_mi = pd.MultiIndex.from_tuples(tuples,
names=['Percentile', 'Group'])
exp_data = np.array(
[[1.0, 11.0], [5.0, 11.0], [9.0, 11.0], [10.5, 11.0], [12.0, 11.0],
[20.0, 1.0], [21.0, 27.0], [22.0, 53.0], [22.5, 76.5],
[23.0, 100.0]])
exp = pd.DataFrame(exp_data.T, columns=exp_mi, index=['b1', 'b2'])
result = ancom(table, grouping)[1]
assert_data_frame_almost_equal(result, exp)
开发者ID:disulfidebond，项目名称:scikit-bio，代码行数:25，代码来源:test_composition.py
示例7: test_ancom_basic_counts_swapped
def test_ancom_basic_counts_swapped(self):
result = ancom(self.table8, self.cats8)
exp = pd.DataFrame({'W': np.array([5, 5, 2, 2, 2, 2, 2]),
'reject': np.array([True, True, False, False,
False, False, False],
dtype=bool)})
assert_data_frame_almost_equal(result, exp)
开发者ID:anderspitman，项目名称:scikit-bio，代码行数:7，代码来源:test_composition.py
示例8: test_ancom_alpha
def test_ancom_alpha(self):
result = ancom(self.table1, self.cats1, alpha=0.5)
exp = pd.DataFrame({'W': np.array([6, 6, 4, 5, 5, 4, 2]),
'reject': np.array([True, True, False, True,
True, False, False],
dtype=bool)})
assert_data_frame_almost_equal(result, exp)
开发者ID:anderspitman，项目名称:scikit-bio，代码行数:7，代码来源:test_composition.py
示例9: test_ancom_theta
def test_ancom_theta(self):
result = ancom(self.table1, self.cats1, theta=0.3)
exp = pd.DataFrame(
{'W': np.array([5, 5, 2, 2, 2, 2, 2]),
'Reject null hypothesis': np.array([True, True, False, False,
False, False, False],
dtype=bool)})
assert_data_frame_almost_equal(result[0], exp)
开发者ID:disulfidebond，项目名称:scikit-bio，代码行数:8，代码来源:test_composition.py
示例10: test_ancom_multiple_comparisons
def test_ancom_multiple_comparisons(self):
result = ancom(self.table1,
self.cats1,
multiple_comparisons_correction='holm-bonferroni',
significance_test=scipy.stats.mannwhitneyu)
exp = pd.DataFrame({'W': np.array([0]*7),
'reject': np.array([False]*7, dtype=bool)})
assert_data_frame_almost_equal(result, exp)
开发者ID:anderspitman，项目名称:scikit-bio，代码行数:8，代码来源:test_composition.py
示例11: test_ancom_alpha
def test_ancom_alpha(self):
result = ancom(self.table1, self.cats1,
multiple_comparisons_correction=None, alpha=0.5)
exp = pd.DataFrame(
{'W': np.array([6, 6, 4, 5, 5, 4, 2]),
'Reject null hypothesis': np.array([True, True, False, True,
True, False, False],
dtype=bool)})
assert_data_frame_almost_equal(result[0], exp)
开发者ID:disulfidebond，项目名称:scikit-bio，代码行数:9，代码来源:test_composition.py
示例12: test_ancom_noncontiguous
def test_ancom_noncontiguous(self):
result = ancom(self.table5,
self.cats5,
multiple_comparisons_correction=None)
exp = pd.DataFrame({'W': np.array([6, 2, 2, 2, 2, 6, 2]),
'reject': np.array([True, False, False, False,
False, True, False],
dtype=bool)})
assert_data_frame_almost_equal(result, exp)
开发者ID:anderspitman，项目名称:scikit-bio，代码行数:9，代码来源:test_composition.py
示例13: test_ancom_letter_categories
def test_ancom_letter_categories(self):
result = ancom(self.table7,
self.cats7,
multiple_comparisons_correction=None)
exp = pd.DataFrame({'W': np.array([5, 3, 3, 2, 2, 5, 2]),
'reject': np.array([True, False, False, False,
False, True, False],
dtype=bool)})
assert_data_frame_almost_equal(result, exp)
开发者ID:anderspitman，项目名称:scikit-bio，代码行数:9，代码来源:test_composition.py
示例14: test_ancom_unbalanced
def test_ancom_unbalanced(self):
result = ancom(self.table6,
self.cats6,
multiple_comparisons_correction=None)
exp = pd.DataFrame(
{'W': np.array([5, 3, 3, 2, 2, 5, 2]),
'Reject null hypothesis': np.array([True, False, False, False,
False, True, False],
dtype=bool)})
assert_data_frame_almost_equal(result[0], exp)
开发者ID:disulfidebond，项目名称:scikit-bio，代码行数:10，代码来源:test_composition.py
示例15: test_ancom_alternative_test
def test_ancom_alternative_test(self):
result = ancom(self.table1,
self.cats1,
multiple_comparisons_correction=None,
significance_test=scipy.stats.ttest_ind)
exp = pd.DataFrame({'W': np.array([5, 5, 2, 2, 2, 2, 2]),
'reject': np.array([True, True, False, False,
False, False, False],
dtype=bool)})
assert_data_frame_almost_equal(result, exp)
开发者ID:anderspitman，项目名称:scikit-bio，代码行数:10，代码来源:test_composition.py
示例16: test_ancom_multiple_comparisons
def test_ancom_multiple_comparisons(self):
significance_test = functools.partial(scipy.stats.mannwhitneyu,
alternative='two-sided')
result = ancom(self.table1,
self.cats1,
multiple_comparisons_correction='holm-bonferroni',
significance_test=significance_test)
exp = pd.DataFrame(
{'W': np.array([0]*7),
'Reject null hypothesis': np.array([False]*7, dtype=bool)})
assert_data_frame_almost_equal(result[0], exp)
开发者ID:RNAer，项目名称:scikit-bio，代码行数:11，代码来源:test_composition.py
示例17: test_ancom_normal_data
def test_ancom_normal_data(self):
result = ancom(self.table2,
self.cats2,
multiple_comparisons_correction=None,
significance_test=scipy.stats.ttest_ind)
exp = pd.DataFrame(
{'W': np.array([8, 8, 3, 3, 8, 3, 3, 3, 3]),
'Reject null hypothesis': np.array([True, True, False, False,
True, False, False,
False, False],
dtype=bool)})
assert_data_frame_almost_equal(result[0], exp)
开发者ID:disulfidebond，项目名称:scikit-bio，代码行数:12，代码来源:test_composition.py
示例18: test_ancom_no_percentiles
def test_ancom_no_percentiles(self):
table = pd.DataFrame([[12],
[9],
[1],
[22],
[20],
[23]],
index=['s1', 's2', 's3', 's4', 's5', 's6'],
columns=['b1'])
grouping = pd.Series(['a', 'a', 'a', 'b', 'b', 'b'],
index=['s1', 's2', 's3', 's4', 's5', 's6'])
result = ancom(table, grouping, percentiles=[])[1]
assert_data_frame_almost_equal(result, pd.DataFrame())
开发者ID:disulfidebond，项目名称:scikit-bio，代码行数:13，代码来源:test_composition.py
示例19: test_ancom_multiple_groups
def test_ancom_multiple_groups(self):
test_table = pd.DataFrame(self.table4)
original_table = copy.deepcopy(test_table)
test_cats = pd.Series(self.cats4)
original_cats = copy.deepcopy(test_cats)
result = ancom(test_table, test_cats)
# Test to make sure that the input table hasn't be altered
assert_data_frame_almost_equal(original_table, test_table)
# Test to make sure that the input table hasn't be altered
pdt.assert_series_equal(original_cats, test_cats)
exp = pd.DataFrame({'W': np.array([8, 7, 3, 3, 7, 3, 3, 3, 3]),
'reject': np.array([True, True, False, False,
True, False, False, False,
False], dtype=bool)})
assert_data_frame_almost_equal(result, exp)
开发者ID:anderspitman，项目名称:scikit-bio，代码行数:15，代码来源:test_composition.py
示例20: test_ancom_basic_counts
def test_ancom_basic_counts(self):
test_table = pd.DataFrame(self.table1)
original_table = copy.deepcopy(test_table)
test_cats = pd.Series(self.cats1)
original_cats = copy.deepcopy(test_cats)
result = ancom(test_table,
test_cats,
multiple_comparisons_correction=None)
# Test to make sure that the input table hasn't be altered
assert_data_frame_almost_equal(original_table, test_table)
# Test to make sure that the input table hasn't be altered
pdt.assert_series_equal(original_cats, test_cats)
exp = pd.DataFrame({'W': np.array([5, 5, 2, 2, 2, 2, 2]),
'reject': np.array([True, True, False, False,
False, False, False],
dtype=bool)})
assert_data_frame_almost_equal(result, exp)
开发者ID:anderspitman，项目名称:scikit-bio，代码行数:17，代码来源:test_composition.py
注：本文中的skbio.stats.composition.ancom函数示例由纯净天空整理自Github/MSDocs等源码及文档管理平台，相关代码片段筛选自各路编程大神贡献的开源项目，源码版权归原作者所有，传播和使用请参考对应项目的License；未经允许，请勿转载。 |
客服电话
APP下载
官方微信
请发表评论