本文整理汇总了Python中skbio.SequenceCollection.distances方法的典型用法代码示例。如果您正苦于以下问题：Python SequenceCollection.distances方法的具体用法？Python SequenceCollection.distances怎么用？Python SequenceCollection.distances使用的例子？那么恭喜您, 这里精选的方法代码示例或许可以为您提供帮助。您也可以进一步了解该方法所在类skbio.SequenceCollection的用法示例。
在下文中一共展示了SequenceCollection.distances方法的2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，您的评价将有助于系统推荐出更棒的Python代码示例。
示例1: test_distances
# 需要导入模块: from skbio import SequenceCollection [as 别名]
# 或者: from skbio.SequenceCollection import distances [as 别名]
def test_distances(self):
s1 = SequenceCollection([DNA("ACGT", "d1"), DNA("ACGG", "d2")])
expected = [[0, 0.25],
[0.25, 0]]
expected = DistanceMatrix(expected, ['d1', 'd2'])
actual = s1.distances(hamming)
self.assertEqual(actual, expected)
# alt distance function provided
def dumb_distance(s1, s2):
return 42.
expected = [[0, 42.],
[42., 0]]
expected = DistanceMatrix(expected, ['d1', 'd2'])
actual = s1.distances(dumb_distance)
self.assertEqual(actual, expected)示例2: test_distances
# 需要导入模块: from skbio import SequenceCollection [as 别名]
# 或者: from skbio.SequenceCollection import distances [as 别名]
def test_distances(self):
s1 = SequenceCollection([DNA("ACGT", metadata={'id': "d1"}),
DNA("ACGG", metadata={'id': "d2"})])
expected = [[0, 0.25],
[0.25, 0]]
expected = DistanceMatrix(expected, ['d1', 'd2'])
def h(s1, s2):
return hamming(s1.values, s2.values)
actual = s1.distances(h)
self.assertEqual(actual, expected)
# alt distance function provided
def dumb_distance(s1, s2):
return 42.
expected = [[0, 42.],
[42., 0]]
expected = DistanceMatrix(expected, ['d1', 'd2'])
actual = s1.distances(dumb_distance)
self.assertEqual(actual, expected)