all barplots generated for ps and lig

scripts/plotting/autoviz.py

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+#!/usr/bin/env python3
+#=======================================================================
+#%% useful links
+#https://towardsdatascience.com/autoviz-automatically-visualize-any-dataset-ba2691a8b55a
+#https://pypi.org/project/autoviz/
+#=======================================================================
+import os, sys
+import pandas as pd
+import numpy as np
+import re
+import argparse
+from autoviz.AutoViz_Class import AutoViz_Class
+
+homedir = os.path.expanduser('~')
+os.chdir(homedir + '/git/LSHTM_analysis/scripts')
+#%%============================================================================
+# variables
+gene = 'pncA'
+drug = 'pyrazinamide'
+
+#%%============================================================================
+#==============
+# directories
+#==============
+datadir = homedir + '/' + 'git/Data'
+    
+indir = datadir + '/' + drug + '/input'
+    
+outdir = datadir + '/' + drug + '/output'
+
+#=======
+# input
+#=======
+in_filename_plotting = 'car_design.csv'
+in_filename_plotting = gene.lower() + '_all_params.csv'
+infile_plotting = outdir + '/' + in_filename_plotting
+print('plotting file: ', infile_plotting
+      , '\n============================================================')
+#=======================================================================
+plotting_df = pd.read_csv(infile_plotting, sep = ',')
+#Instantiate the AutoViz class
+AV = AutoViz_Class()
+df = AV.AutoViz(infile_plotting)
+#df2 = AV.AutoViz(plotting_df)
+plotting_df.columns[~plotting_df.columns.isin(df.columns)]