Open DingWB opened 5 months ago
When other packages are imported, such as seaborn and set some kind of style, there would be a unexpected grid in heatmap
import os,sys %matplotlib inline import matplotlib.pylab as plt import pickle plt.rcParams['figure.dpi'] = 100 plt.rcParams['savefig.dpi']=300 plt.rcParams['font.family']='sans serif' plt.rcParams['font.sans-serif']='Arial' plt.rcParams['pdf.fonttype']=42 import pandas as pd from PyComplexHeatmap import * import PyComplexHeatmap as pch print(pch.__version__) import scanpy #import seaborn as sns # sns.set_style("whitegrid") # sns.set_style("white")
df_row=pd.read_csv("df_row.csv",index_col=0) df_row.spatial_domain=df_row.spatial_domain.astype(str) df_col=pd.read_csv("df_col.csv",index_col=0) df_col.chromosome=df_col.chromosome.astype(str) data=pd.read_csv("cnv_mtr_filtered.csv",index_col=0) df_col=df_col.sample(500) data=data.loc[:,df_col.index.tolist()] data
plt.figure(figsize=(10, 5)) right_annotation = HeatmapAnnotation( **, axis=0) top_annotation = HeatmapAnnotation( label=anno_label(df_col['chromosome'],merge=True, rotation=90), chromosome = anno_simple(df_col['chromosome'], add_text=False, legend_kws={'frameon':False}, colors= dict(zip(np.arange(1,23).astype(str),['#5daab4','#000000']*11)), legend=True), axis=1) cm = ClusterMapPlotter(data=data, vmax=1.02, vmin=0.98, top_annotation=top_annotation, left_annotation =right_annotation , cmap='RdBu_r', row_cluster=False, col_cluster=False, col_split = df_col['chromosome'], col_split_order = [str(i) for i in list(range(1,23))], col_split_gap=0.4 )
When use sns.set_style("whitegrid") or change setting in scanpy:
sns.set_style("whitegrid")
import scanpy sc.settings.verbosity = 3 sc.settings.set_figure_params(dpi=100, dpi_save=300, facecolor='white', figsize=(4,4))
An unexpected grid would appear:
When set sns.set_style("whitegrid") or in default, the heatmap looks good:
When other packages are imported, such as seaborn and set some kind of style, there would be a unexpected grid in heatmap
When use
sns.set_style("whitegrid")
or change setting in scanpy:An unexpected grid would appear:
When set
sns.set_style("whitegrid")
or in default, the heatmap looks good: