I have exported a large Matrix from Matlab to a data.dat file, which is tab delimited. I am importing this data into a iPython script to use seaborn to create a heatmap of the matrix using the following script:
import numpy as np
import seaborn as sns
import matplotlib.pylab as plt
uniform_data = np.loadtxt("data.dat", delimiter="\t")
ax = sns.heatmap(uniform_data, linewidth=0.0)
plt.show()
This code runs fine and outputs a correct heatmap. For small matrices, the output has a nice variation indicating the matrix elements:
However, if the size of the matrix increases in size, the result seems to have a uniform colour, which indicates that the result needs to be normalised:
which does not seem to contain any extractable information. How can I address this?
Related
%matplotlib inline
import matplotlib.pyplot as plt
import numpy as np
fig,ax=plt.subplots(2,2,figsize=(15,10))
x=np.linspace(-3,3)
ax[0,0].plot(x,foo-function)
now I need a way to save each of the 4 plots into one file like this:
plt1=topleft_plot.saveNOTfigBUTplot('quadfunction.pdf')
how?
Using the answer here: https://stackoverflow.com/a/4328608/16299117
We can do the following to save a SINGLE subplot from the overall figure:
import matplotlib.pyplot as plt
import numpy as np
fig,ax=plt.subplots(2,2,figsize=(15,10))
x=np.linspace(-3,3)
ax[0,0].plot(x,x**2) # This is just to make an actual plot.
# I am not using jupyter notebook, so I use this to show it instead of %inline
plt.show()
# Getting only the axes specified by ax[0,0]
extent = ax[0,0].get_window_extent().transformed(fig.dpi_scale_trans.inverted())
# Saving it to a pdf file.
fig.savefig('ax2_figure.pdf', bbox_inches=extent.expanded(1.1, 1.2))
EDIT: I believe I may have misunderstood what you want. If you want to save EACH plot individually, say as 4 different pages in a pdf, you can do the following adapted from this answer: https://stackoverflow.com/a/29435953/16299117
This will save each subplot from the figure as a different page in a single pdf.
import matplotlib.pyplot as plt
import numpy as np
from matplotlib.backends.backend_pdf import PdfPages
fig,ax=plt.subplots(2,2,figsize=(15,10))
x=np.linspace(-3,3)
ax[0,0].plot(x,x**2) # This is just to make an actual plot.
with PdfPages('foo.pdf') as pdf:
for x in range(ax.shape[0]):
for y in range(ax.shape[1]):
extent = ax[x, y].get_window_extent().transformed(fig.dpi_scale_trans.inverted())
pdf.savefig(bbox_inches=extent.expanded(1.1, 1.2))
Sample result I want to color code the circle plots in my scatter and associate them with a legend.
I have made various attempts at a solution referencing matplotlib.org and this website. All to no avail.
import numpy as np
import pandas as pd
import matplotlib.pyplot as plt
%matplotlib inline
hysector = pd.read_csv('LF98TRUU_Lvl3_sector.csv',index_col=0)
hysector.plot.scatter(x='OAD',y='OAS',s=hysector['Wgt']*35,label='Sector');
I am plotting data from a .txt file using Matplotlib and although the plot looks as expected there is an odd horizontal line through the plot. This occurs across three different .txt data files I've tried. I plotted the data in Mathematica to ensure that it is not an artifact of the data. I am trying to remove the line from my data.
I've tried the accessing some of the Matplotlib methods like lines.remove() with no luck. Below is the code I'm executing and the resulting plot.
import numpy as np
import matplotlib.pyplot as plt
neon = np.loadtxt("data/neon.txt")
neon_plot = plt.plot(neon)
plt.grid()
This is an example of the horizontal line going through my plots
I am writting a script to plot some data.
I am using python 3.7.1 on windows and have the following code to plot:
import pandas as pd
import matplotlib.pyplot as plt
files=['path']
for i in range(len(files)):
data = pd.read_csv(files[i], sep=';', skiprows=17, header=None,engine='python', decimal=",")
c=files[0].split('\\')
path='\\'.join(c[:-1])
x= data.loc[:,0].values
y= data.loc[:,1].values
c,data=None,None
plt.ioff() #turns off the plotting
plt.plot(x,y)
plt.xlabel('x]')
plt.ylabel('y')
plt.savefig(path+'\\ title123') #saves image
I want to transform the dataframe from pandas into a numpy array dtype float64.
Currently, the code I have transforms the data into an object type. I cannot plot this because the code is taking too long to run.
An example of what I am trying to achieve is:
import numpy as np
import matplotlib.pyplot as plt
x=np.linspace(0,10,1000000)
y=np.sin(x)
plt.plot(x,y)
I will leave a link to the file.
https://drive.google.com/open?id=1kir-cGlk3bZSLmvD_tfnbGUaTYzvcW-3
Can anyone give me a help?
Kind Regards!
I just noticed that it was a problem with ',' and '.'. Sort of a math "language" conflict.
However, the for loop runs extremely slow when more than one file is loaded.
Kind regards to all!
I am trying to generate the log-log plot of a vector, and save the generated plot to file.
This is what I have tried so far:
import matplotlib.pyplot as plt
...
plt.loglog(deg_distribution,'b-',marker='o')
plt.savefig('LogLog.png')
I am using Jupyter Notebook, in which I get the generated graph as output after statement 2 in the above code, but the saved file is blank.
Notice that pyplot has the concept of the current figure and the current axes. All plotting commands apply to the current axes. So, make sure you plot in the right axes. Here is a WME.
import matplotlib.pyplot as plt
fig, ax = plt.subplots()
ax.loglog(range(100), 'b-',marker='o')
plt.savefig('test.png') # apply to the axes `ax`