Rectangle 27 37

You can use plt.subplots_adjust to change the spacing between the subplots Link

subplots_adjust(left=None, bottom=None, right=None, top=None, wspace=None, hspace=None)

left  = 0.125  # the left side of the subplots of the figure
right = 0.9    # the right side of the subplots of the figure
bottom = 0.1   # the bottom of the subplots of the figure
top = 0.9      # the top of the subplots of the figure
wspace = 0.2   # the amount of width reserved for blank space between subplots
hspace = 0.2   # the amount of height reserved for white space between subplots

python - Matplotlib subplots_adjust hspace so titles and xlabels don't...

python matplotlib
Rectangle 27 31

The link posted by Jose has been updated and pylab now has a tight_layout() function that does this automatically (in matplotlib version 1.1.0).

python - Matplotlib subplots_adjust hspace so titles and xlabels don't...

python matplotlib
Rectangle 27 15

I find this quite tricky, but there is some information on it here at the MatPlotLib FAQ. It is rather cumbersome, and requires finding out about what space individual elements (ticklabels) take up...

Update: The page states that the tight_layout() function is the easiest way to go, which attempts to automatically correct spacing.

Otherwise, it shows ways to acquire the sizes of various elements (eg. labels) so you can then correct the spacings/positions of your axes elements. Here is an example from the above FAQ page, which determines the width of a very wide y-axis label, and adjusts the axis width accordingly:

import matplotlib.pyplot as plt
import matplotlib.transforms as mtransforms
fig = plt.figure()
ax = fig.add_subplot(111)
ax.plot(range(10))
ax.set_yticks((2,5,7))
labels = ax.set_yticklabels(('really, really, really', 'long', 'labels'))

def on_draw(event):
   bboxes = []
   for label in labels:
       bbox = label.get_window_extent()
       # the figure transform goes from relative coords->pixels and we
       # want the inverse of that
       bboxi = bbox.inverse_transformed(fig.transFigure)
       bboxes.append(bboxi)

   # this is the bbox that bounds all the bboxes, again in relative
   # figure coords
   bbox = mtransforms.Bbox.union(bboxes)
   if fig.subplotpars.left < bbox.width:
       # we need to move it over
       fig.subplots_adjust(left=1.1*bbox.width) # pad a little
       fig.canvas.draw()
   return False

fig.canvas.mpl_connect('draw_event', on_draw)

plt.show()

Link exists again - says tight_layout() is now the way to go, which indeed it is.

python - Matplotlib subplots_adjust hspace so titles and xlabels don't...

python matplotlib
Rectangle 27 3

You can make your title go up so it doesn't overlap with the y top value:

plt.title('Effect of RARa overexpression on Cyp26A1 dose-response curve',fontsize=15, y=1.5) # Change y value accordinly

How to remove top value of y-axis only from Python's Matplotlib figure...

python matplotlib
Rectangle 27 1

import matplotlib
matplotlib.use("pdf")
import matplotlib.pyplot as plt

plt.figure()
plt.gcf().add_subplot(421)
plt.fill([0,0,1,1],[0,1,1,0])
plt.gcf().add_subplot(422)
plt.fill([0,0,1,1],[0,1,1,0])
plt.gcf().add_subplot(423)
plt.fill([0,0,1,1],[0,1,1,0])
plt.suptitle("Figure Title")
plt.gcf().subplots_adjust(hspace=0.5,wspace=0.5)
plt.savefig("outfig")

I don't think so because there are other formatting things I need to do that I didn't include in the original question for brevity. One of these is plt.subplots_adjust(wspace=0,hspace=0). I'm not sure that would work after the fact.

@mishaF : you can do subplots_adjust() using this approach. See my edit.

sure enough - that works fine! Thanks tons!!

python - How can I make a blank subplot in matplotlib? - Stack Overflo...

python matplotlib axes subplot
Rectangle 27 0

Can anyone explain how Matplotlib sizes / packs things in general ? Take for example 3 vertical subplots with titles and xlabels: how much space do title1 plot1.h xlabel1 hspace title2 ... get ?

matplotlib: how to hide grey border around the plot - Stack Overflow

matplotlib
Rectangle 27 0

import matplotlib
matplotlib.use("pdf")
import matplotlib.pyplot as plt

plt.figure()
plt.gcf().add_subplot(421)
plt.fill([0,0,1,1],[0,1,1,0])
plt.gcf().add_subplot(422)
plt.fill([0,0,1,1],[0,1,1,0])
plt.gcf().add_subplot(423)
plt.fill([0,0,1,1],[0,1,1,0])
plt.suptitle("Figure Title")
plt.gcf().subplots_adjust(hspace=0.5,wspace=0.5)
plt.savefig("outfig")

I don't think so because there are other formatting things I need to do that I didn't include in the original question for brevity. One of these is plt.subplots_adjust(wspace=0,hspace=0). I'm not sure that would work after the fact.

@mishaF : you can do subplots_adjust() using this approach. See my edit.

sure enough - that works fine! Thanks tons!!

python - How can I make a blank subplot in matplotlib? - Stack Overflo...

python matplotlib axes subplot
Rectangle 27 0

The link posted by Jose has been updated and pylab now has a tight_layout() function that does this automatically (in matplotlib version 1.1.0).

Matplotlib subplots_adjust hspace so titles and xlabels don't overlap?...

matplotlib
Rectangle 27 0

The link posted by Jose has been updated and pylab now has a tight_layout() function that does this automatically (in matplotlib version 1.1.0).

python - Matplotlib subplots_adjust hspace so titles and xlabels don't...

python matplotlib
Rectangle 27 0

You can use plt.subplots_adjust to change the spacing between the subplots Link

subplots_adjust(left=None, bottom=None, right=None, top=None, wspace=None, hspace=None)

left  = 0.125  # the left side of the subplots of the figure
right = 0.9    # the right side of the subplots of the figure
bottom = 0.1   # the bottom of the subplots of the figure
top = 0.9      # the top of the subplots of the figure
wspace = 0.2   # the amount of width reserved for blank space between subplots
hspace = 0.2   # the amount of height reserved for white space between subplots

python - Matplotlib subplots_adjust hspace so titles and xlabels don't...

python matplotlib
Rectangle 27 0

I find this quite tricky, but there is some information on it here at the MatPlotLib FAQ. It is rather cumbersome, and requires finding out about what space individual elements (ticklabels) take up...

Update: The page states that the tight_layout() function is the easiest way to go, which attempts to automatically correct spacing.

Otherwise, it shows ways to acquire the sizes of various elements (eg. labels) so you can then correct the spacings/positions of your axes elements. Here is an example from the above FAQ page, which determines the width of a very wide y-axis label, and adjusts the axis width accordingly:

import matplotlib.pyplot as plt
import matplotlib.transforms as mtransforms
fig = plt.figure()
ax = fig.add_subplot(111)
ax.plot(range(10))
ax.set_yticks((2,5,7))
labels = ax.set_yticklabels(('really, really, really', 'long', 'labels'))

def on_draw(event):
   bboxes = []
   for label in labels:
       bbox = label.get_window_extent()
       # the figure transform goes from relative coords->pixels and we
       # want the inverse of that
       bboxi = bbox.inverse_transformed(fig.transFigure)
       bboxes.append(bboxi)

   # this is the bbox that bounds all the bboxes, again in relative
   # figure coords
   bbox = mtransforms.Bbox.union(bboxes)
   if fig.subplotpars.left < bbox.width:
       # we need to move it over
       fig.subplots_adjust(left=1.1*bbox.width) # pad a little
       fig.canvas.draw()
   return False

fig.canvas.mpl_connect('draw_event', on_draw)

plt.show()

Link exists again - says tight_layout() is now the way to go, which indeed it is.

python - Matplotlib subplots_adjust hspace so titles and xlabels don't...

python matplotlib
Rectangle 27 0

import matplotlib
matplotlib.use("pdf")
import matplotlib.pyplot as plt

plt.figure()
plt.gcf().add_subplot(421)
plt.fill([0,0,1,1],[0,1,1,0])
plt.gcf().add_subplot(422)
plt.fill([0,0,1,1],[0,1,1,0])
plt.gcf().add_subplot(423)
plt.fill([0,0,1,1],[0,1,1,0])
plt.suptitle("Figure Title")
plt.gcf().subplots_adjust(hspace=0.5,wspace=0.5)
plt.savefig("outfig")

I don't think so because there are other formatting things I need to do that I didn't include in the original question for brevity. One of these is plt.subplots_adjust(wspace=0,hspace=0). I'm not sure that would work after the fact.

@mishaF : you can do subplots_adjust() using this approach. See my edit.

sure enough - that works fine! Thanks tons!!

python - How can I make a blank subplot in matplotlib? - Stack Overflo...

python matplotlib axes subplot
Rectangle 27 0

I find this quite tricky, but there is some information on here. It is rather cumbersome, and requires finding out about what space individual elements (ticklabels) take up...

Matplotlib subplots_adjust hspace so titles and xlabels don't overlap?...

matplotlib
Rectangle 27 0

ax.set_title('My Title\n', fontsize="15", color="red")
plt.imshow(myfile, origin="upper")

If you put '\n' right after your title string, the plot is drawn just below the title. That might be a fast solution too.

Python Matplotlib figure title overlaps axes label when using twiny - ...

python matplotlib title figure
Rectangle 27 0

My first try on @Evert's solution failed due to overlaps of the legend and the subplot's title.

In fact, the overlaps are caused by fig.tight_layout(), which changes the subplots' layout without considering the figure legend. However, fig.tight_layout() is necessary.

In order to avoid the overlaps, we can tell fig.tight_layout() to leave spaces for the figure's legend by fig.tight_layout(rect=(0,0,1,0.9)).

python - how do I make a single legend for many subplots with matplotl...

python matplotlib
Rectangle 27 0

You can make your title go up so it doesn't overlap with the y top value:

plt.title('Effect of RARa overexpression on Cyp26A1 dose-response curve',fontsize=15, y=1.5) # Change y value accordinly

How to remove top value of y-axis only from Python's Matplotlib figure...

python matplotlib
Rectangle 27 0

You can use plt.subplots_adjust to change the spacing between the subplots Link

subplots_adjust(left=None, bottom=None, right=None, top=None, wspace=None, hspace=None)

left  = 0.125  # the left side of the subplots of the figure
right = 0.9    # the right side of the subplots of the figure
bottom = 0.1   # the bottom of the subplots of the figure
top = 0.9      # the top of the subplots of the figure
wspace = 0.2   # the amount of width reserved for blank space between subplots
hspace = 0.2   # the amount of height reserved for white space between subplots

Matplotlib subplots_adjust hspace so titles and xlabels don't overlap?...

matplotlib