关于树状图的一些问题-python(Scipy) [英] Some questions on dendrogram - python (Scipy)
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问题描述
我是scipy的新手,但我设法获得了预期的树状图。我还有其他问题;
- 在树状图中,某些点之间的距离为
0
,但不是$ b由于图像边框,$ b可见。如何删除边框并使
的y轴下限为-1
,以便清晰可见。
例如这些点之间的距离是0
(13,17),(2,10),(4,8,19) - 如何我可以在特定距离上修剪/截断吗?例如
0.4
- 如何将这些簇(修剪后)写入文件
我的python代码:
import scipy
import pylab
import scipy.cluster.hierarchy as sch
import numpy as np
D = np.genfromtxt('LtoR.txt',dtype = None)
def llf(id ):
返回str(id)
图= pylab.figure(figsize =(10,10))
Y = sch.linkage(D,method ='single')
Z1 = sch.dendrogram(Y,leaf_label_func = llf,leaf_rotation = 90)
fig.show()
fig.savefig('dendrogram.png')
树状图:
谢谢。
解决方案
1。 fig.gca()。set_ylim(-0.4,1.2)
此处 gca()
返回当前的 axes
对象,因此可以给它起一个名字
ax = fig.gca()
ax.set_ylim(-0.4,ax.get_ylim()[1])$ b $ b
I am new to scipy but I managed to get the expected dendrogram. I am some more questions;
- In the dendrogram, distance between some points are
0
but its not visible due to image border. How can I remove the border and make the lower limit of y-axis to-1
, so that it is clearly visible. e.g. distance between these points are0
(13,17), (2,10), (4,8,19) - How can I prune/truncate on a particular distance. for e.g. prune at
0.4
- How to write these clusters(after pruning) to a file
My python code:
import scipy
import pylab
import scipy.cluster.hierarchy as sch
import numpy as np
D = np.genfromtxt('LtoR.txt', dtype=None)
def llf(id):
return str(id)
fig = pylab.figure(figsize=(10,10))
Y = sch.linkage(D, method='single')
Z1 = sch.dendrogram(Y,leaf_label_func=llf,leaf_rotation=90)
fig.show()
fig.savefig('dendrogram.png')
Dendrogram:
thank you.
解决方案
1.fig.gca().set_ylim(-0.4,1.2)
Here gca()
returns the current axes
object, so you can give it a name
ax=fig.gca()
ax.set_ylim(-0.4,ax.get_ylim()[1])
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