'how to set distfun of create_dendrogram in plotly.figure_factory
I am meeting some difficulties when drawing a dendrogram by create_dendrogram in plotly.figure_factory.
the default linkagefun (linkagefun) is complete and the default setting of distance function (distfun) is scs.distance.pdist
but the setting I want is jaccard for distfun, and average for linkagefun:
the setting I want shows below:
import pandas as pd
import numpy as np
from scipy.spatial.distance import pdist
import matplotlib.pyplot as plt
import scipy.cluster.hierarchy as such
plt.figure(figsize = (10, 10))
disMat = sch.distance.pdist(df, metric='jaccard')
disMat1 = sch.distance.squareform(disMat)
Z=sch.linkage(disMat1,method='average')
Dend=sch.dendrogram(Z,orientation='right')
plt.tick_params(
axis='y',
which='both',
direction='in',
left=False,
right=False,
labelleft=False)
I noticed that the linkagefun could be set by linkagefun=lambda x: sch.linkage(x, 'average'), but the distfun can't be set by distfun='jaccard', and I have no idea of how to set this function.
fig = create_dendrogram(df, orientation='left',
labels=df.index,
distfun='jaccard',
linkagefun=lambda x: sch.linkage(x, 'average'))
fig.show()
the example of the df set below:
import pandas as pd
df = pd.DataFrame({'1-7':[0,0,1,1,0,1,1],'1-2':[1,0,1,0,0,1,1],'2-3':[1,0,0,0,1,1,0],'2-2':[0,1,0,1,0,1,1],'1-1':[1,0,0,1,0,1,0],'1-3':[0,1,1,1,0,0,0],'1-5':[0,1,0,1,1,0,1]},index=['a','b','c','d','e','f','g'])
since I need Dash to plot the figure on the web page, it seems I have to use create_dendrogram in plotly.
Sources
This article follows the attribution requirements of Stack Overflow and is licensed under CC BY-SA 3.0.
Source: Stack Overflow
| Solution | Source |
|---|
