Comments (5)
I am not sure whether this is a displaying issue, please check whether this issue is still here if you save it into pdf using savefig(**,bbox_inches='tight')
and open the pdf.
from pycomplexheatmap.
Saving as PDF didn't change the results. I realized this is caused by the fact that I used the basic ASTERISK U+002A * instead of U+2217 ASTERISK OPERATOR ∗. The basic asterisk sits higher.
I also had to change the font to Courier with annot_kws={'fontname':'Courier'}
from pycomplexheatmap.
Thanks for helping debug.
Could you please paste your completed updated code here so that other users could potentially avoid such an issue?
from pycomplexheatmap.
Here is the code:
# Assuming you have a dataframe of heatmap values and another matrix of corresponding p-values
heatmap = ...
pval = ...
# Format stars for significance. Note we are using the asterisk operator.
def fmt_star(x):
if x >= 0.05:
return ' '
elif x < 0.05:
return '∗'
elif x < 0.01:
return '∗∗'
elif x < 0.001:
return '∗∗∗'
# Matrix of star annotation
star = pval.map(fmt_star)
# Plot heatmap with custom star annotation
# We pass additional keyword arugments to customize the font of the annotation
# Choose a monospaced typeface that can render the U+2217 ASTERISK OPERATOR ∗ (ex. Courier)
cm = pch.ClusterMapPlotter(
data=heatmap,
...,
annot=star, fmt=None, annot_kws={'fontname': 'Courier'},
)
from pycomplexheatmap.
Thanks. @racng
from pycomplexheatmap.
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