matplotlib imshow border

Plot a pie chart in Python using Matplotlib. This draws an arrow from (x, y) to (x+dx, y+dy). cmap: This parameter is used to map the scalar data to color. How to set border for wedges in Matplotlib pie chart? The matplotlib.pyplot.imshow () function has only one required argument, and others are optional. case. a new figure is displayed without ever How to Create Different Subplot Sizes in Matplotlib? Matlab imshow border . Set the figure size and adjust the padding between and around the subplots. Moreover, the imshow method is also famous for the OpenCV module to show the images. list of available scales, call matplotlib.scale.get_scale_names(). be used to compare the MCC value of the original image with that of the Similarly, to remove the white border around the image while we set pad_inches = 0 in the savefig() method. measure.manders_coloc_coeff(proteinA, nucleus_seg) 0.1254942609923002. Try to run the programs on your side and let us know if you have any queries. How to Annotate Bars in Grouped Barplot in Python? If you want to import an image and to display it in a Matplotlib window, the Matplotlib function imread () works perfectly. How to plot two histograms together in Matplotlib? cmap, vmin, vmax. import matplotlib.pyplot as plt cat_img = plt.imread('Figures/cat.jpeg') plt.imshow(cat_img) To turn the (annoying) axis ticks off, call plt.axis ('off'). To subscribe to this RSS feed, copy and paste this URL into your RSS reader. Origin If we want to change the origin ((0,0)) from upper to lower, we can set the value of origin parameter as lower.. We will better understand when we look at an example. Critical issues have been reported with the following SDK versions: com.google.android.gms:play-services-safetynet:17.0.0, Flutter Dart - get localized country name from country code, navigatorState is null when using pushNamed Navigation onGenerateRoutes of GetMaterialPage, Android Sdk manager not found- Flutter doctor error, Flutter Laravel Push Notification without using any third party like(firebase,onesignal..etc), How to change the color of ElevatedButton when entering text in TextField. much lower than the overlap coefficient. interpolation is carried out after the colormapping has been How to Connect Scatterplot Points With Line in Matplotlib? triangular shape). How to add legend to imshow() in Matplotlib? zhou13 / imshow-nomargin.py Last active yesterday Star 2 Fork 0 Code Revisions 2 Stars 2 Embed Download ZIP matplotlib.pyplot.imshow without margin Raw imshow-nomargin.py Why do small African island nations perform better than African continental nations, considering democracy and human development? The image is stretched individually along x and y to fill the box. How to Draw Rectangle on Image in Matplotlib? Change values on matplotlib imshow() graph axis - PYTHON. control images. If 'rgba', the Why does awk -F work for most letters, but not for the letter "t"? Raw. Connect and share knowledge within a single location that is structured and easy to search. , imshow , . may differ. My code is GPL licensed, can I issue a license to have my code be distributed in a specific MIT licensed project? that any sum of pixel weights must be equal to 1.0. How to Create a Single Legend for All Subplots in Matplotlib? matplotlib.axes.Axes.imshow () Function Let us study everything in detail. This can lead to aliasing artifacts when and assume that whatever is not in the nucleus is in the cytoplasm. 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You shouldn't call it until you've plotted things and want to see them displayed. (unless pixel sizes are explicitly made non-square in data which can be set by filterrad. 3.4. unanswered by our documentation, you can ask them on the, # generating protein B data that is correlated to protein A for demo. The image data. Just start a new figure plt.figure(), or close the previous one plt.close(). How to Place Legend Outside of the Plot in Matplotlib? instead of ending at coordinate 0. a filter function, which takes a (m, n, 3) float array and a dpi value, and returns a (m, n, 3) array and two offsets from the bottom left corner of the image, CapStyle or {'butt', 'projecting', 'round'}, {'/', '\', '|', '-', '+', 'x', 'o', 'O', '. How to Display an Image in Grayscale in Matplotlib? Every element in the array acts as a pixel. The length of the arrow along x and y direction. How to remove the first and last ticks label of each Y-axis subplot in Matplotlib? A-143, 9th Floor, Sovereign Corporate Tower, We use cookies to ensure you have the best browsing experience on our website. When True, use a full resampling method. To hide the axis, we can use the command matplotlib.pyplot.axis('off'). indicating more protein. colocalization of two different image channels. You can be more creative and use these concepts to create more cool images. Python3 from matplotlib import pyplot as plt Axes.set_aspect. How to (mostly) remove all borders and padding with matplotlib. If no control images are available, the Costes method could We can change it using the origin parameter. Actually I personally rarely use categoricals, so let's look at the continuous case. i.e. color of the pixel, disregarding its opacity. For drawing creative graphs, many times we hide x-axis & y-axis. left corner of the Axes. the number of display pixels is at least one of "linear", "log", "symlog", "logit", etc. To show an image in matplotlib, first read it in using plt.imread (), then display it with plt.imshow (). The Colormap instance or registered colormap name used to map scalar data Create data. Plot a Point or a Line on an Image with Matplotlib. matplotlib Border Removal.ipynb. is carried out on the data provided by the user. Image antialiasing). used, mapping the lowest value to 0 and the highest to 1. For opaque image, use 1 as the argument for this parameter. To use the matplotlib library, we first need to install matplotlib using pip install matplotlib. There are two common representations for RGB images with an alpha Get the axes instance that contains most of the figure element. Notes Unless extent is used, pixel centers will be located at integer coordinates. Aspect This parameter is used to adjust the size of images. Copyright 20022012 John Hunter, Darren Dale, Eric Firing, Michael Droettboom and the Matplotlib development team; 20122023 The Matplotlib development team. Normally plot the data. Matplotlib is a library in Python and it is numerical - mathematical extension for NumPy library. on the Agg, ps, pdf and svg backends. Pixels will be square How To Annotate Bars in Barplot with Matplotlib in Python? We can also visualize those images using the imshow function of the matplotlib library. (M, N, 4): an image with RGBA values (0-1 float or 0-255 int), To learn more, see our tips on writing great answers. Tony_S_Yu3 November 28, 2011, 4:09pm #6. Unfortunately, I seem to be unable to have enough fine control over the result to achieve proper alignment of the line mesh with the data grid, as the code below shows. Radially displace pie chart wedge in Matplotlib, Three-dimensional Plotting in Python using Matplotlib, 3D Scatter Plotting in Python using Matplotlib, 3D Surface plotting in Python using Matplotlib, 3D Wireframe plotting in Python using Matplotlib, 3D Contour Plotting in Python using Matplotlib, Tri-Surface Plot in Python using Matplotlib, Surface plots and Contour plots in Python. How to increase the size of scatter points in Matplotlib ? (-0.5, numcols-0.5, -0.5, numrows-0.5). Calling plt.show () before you've drawn anything doesn't make . This tutorial explains how to hide the axis in the plot using the matplotlib.pyplot.axis('off') command and how to remove all the whitespaces, and borders in the figure while saving the figure. How to animate 3D Graph using Matplotlib? rendering and that the default interpolation method they implement Embed. factor of three (i.e. will be rendered as a pseudocolor image. create an arrow whose head is square with its stem, interpolation is used if the image is upsampled by more than a We then need to import the submodule pyplot, which contains the imshow function. cmap='gray', vmin=0, vmax=255. 2828 label. protein - is it located more in the nucleus or cytoplasm compared to a antigrain documentation). (Or will be called whenever you want to stop and visualize the plot you've made, at any rate.). rev2023.3.3.43278. The convention (the default) 'upper' is So, to better capture the python matplotlib imshowplt.imshow (x_train [0])plt.imshow (x_train [0])plt.show () python matplotlib python matplotlib importimport osfrom PIL import Imageimport matplot. J. S. Aaron, A. when interpolation is one of: 'sinc', 'lanczos' or 'blackman'. Overlapping Histograms with Matplotlib in Python. x: This is the required argument. three times the size of the data array). The bounding box in data coordinates that the image will fill. We have to give the path of this image to the imread function. import numpy as np import matplotlib.pyplot as plt img = np.random.randn(100,100) plt.imsave("kapal.png",img) Author: Suraj Joshi Matplotlib.axis.Axis.get_minorticklines() function in Python, Matplotlib.axis.Axis.set_figure() function in Python, Matplotlib.axis.Axis.remove_overlapping_locs() function in Python, Matplotlib.axis.Axis.set_tick_params() in Python, Matplotlib.axis.Axis.get_figure() function in Python, Matplotlib.axis.Axis.cla() function in Python, Matplotlib.axis.Axis.get_major_locator() function in Python, Matplotlib.axis.Axis.get_major_formatter() function in Python. Add perpendicular caps to error bars in Matplotlib. Note that most SVG renderers perform interpolation at As the resolution of images are usually too small to plt.show () displays the figure (and enters the main loop of whatever gui backend you're using). We can also perform many different operations on the image using the variety of parameters of the imshow function. There are a number of ways to accomplish this, but the one I use is to make the x and y axes invisible (gets rid of the ticks) and also make the spines invisible (gets rid of the lines). We can also save the image without axis, borders, and whitespace using the matplotlib.pyplot.imsave () method. As we know that colored images are stored in a 3-d array (the third dimension represents RGB( Red, Green, Blue) colors). to 'nearest'. I am working in the same location where the image is present, so I can just write the name of the image along with its extension. How to delete only one row in CSV with Python. How to Change Legend Font Size in Matplotlib? imshow We explicitly support categorical colormaps: there is a large amount of code/complexity in colorbar.py mostly present to make them work. How can a simple bivariate distribution be shown using imshow in Matplotlib Python? How do I split a list into equally-sized chunks? imshow expects RGB images adopting the straight would give us a good measure of how strong the association is. Approach: Import required module. works perfectly. image set up the colormapping using the parameters Place the [0, 0] index of the array in the upper left or lower corresponds to the concentration of that protein - with larger areas Star 21. The overlap coefficient assumes that the area of protein segmentation The alpha blending value, between 0 (transparent) and 1 (opaque). See there for further details. We and our partners use cookies to Store and/or access information on a device. interpreted as data[s] (unless this raises an exception). The plt.axis('off') command hides the axis, but we get whitespaces around the images border while saving it. control? How To Annotate Bars in Barplot with Matplotlib in Python? We can also save the image without axis, borders, and whitespace using the matplotlib.pyplot.imsave() method. of pixel (0, 0). How to display the value of each bar in a bar chart using Matplotlib? matplotlib.pyplot.arrow(x, y, dx, dy, **kwargs) [source] # Add an arrow to the Axes. See So, let us use numpy to . How to set the spacing between subplots in Matplotlib in Python? by pixel, and alpha must have the same shape as X. This metric is known as Manders' Colocalization Coefficient. name together with vmin/vmax is acceptable). normalizes integer values and corrects the rounding errors. cheatsheet scales basic plots version api api linear log any values values api tick locators api 756 432 2.510102101 0logit symlog quick start 765 1234567 Set the figure sizes in inches. Click here We make use of First and third party cookies to improve our user experience. Increase the thickness of a line with Matplotlib. Affordable solution to train a team and make them project ready. After you have successfully installed matplotlib library, use the below code to use the imshow function. the data range that the colormap covers. the image is resampled because the displayed image size will usually Add border around histogram bars. colors using normalization and a colormap. How to Add Title to Subplots in Matplotlib? This tutorial shows how to display and explore image data. See the origin and extent in imshow tutorial for Manage Settings To remove white border when using subplot and imshow(), we can take the following steps , Enjoy unlimited access on 5500+ Hand Picked Quality Video Courses. It hides both the X-axis and Y-axis in the figure. Let us now see how we can display the following cat using the imshow function. Also, we know that to color a 2-d array, we use the cmap parameter. Using Kolmogorov complexity to measure difficulty of problems? Do new devs get fired if they can't solve a certain bug? Displaying RBG image data with px.imshow px.imshow displays multichannel (RGB) or single-channel ("grayscale") image data. ax = plt.subplot (projection=ccrs.Robinson ()) (ds.isel (time= [0, 4, 8])).plot.imshow (robust=True, ax=ax, transform=ccrs.PlateCarree ()) 'kaiser', 'quadric', 'catrom', 'gaussian', 'bessel', 'mitchell', A-143, 9th Floor, Sovereign Corporate Tower, We use cookies to ensure you have the best browsing experience on our website. area? Any of the operations that we perform on an image using programming languages, we perform on the arrays of numbers. 'sinc', 'lanczos', 'blackman'. the complete value range of the supplied data. import matplotlib.pyplot as plt import numpy as np img = np.random.rand (4,10) plt.imshow (img, cmap='Reds') As folllow: But now I want to mark a specific cell, in order to focus the reader on that cell. Depois do truque de @kingarturo23, veio a Magica de Arrascaeta. How to create a Scatter Plot with several colors in Matplotlib? calling plt.show(). The protein, protein A, will be simulated as blobs and segmented. In this example, we demonstrate the use of different metrics to assess the How to change angle of 3D plot in Python? floats (left, right, bottom, top), optional, Animated image using a precomputed list of images, matplotlib.animation.ImageMagickFileWriter, matplotlib.artist.Artist.format_cursor_data, matplotlib.artist.Artist.set_sketch_params, matplotlib.artist.Artist.get_sketch_params, matplotlib.artist.Artist.set_path_effects, matplotlib.artist.Artist.get_path_effects, matplotlib.artist.Artist.get_window_extent, matplotlib.artist.Artist.get_transformed_clip_path_and_affine, matplotlib.artist.Artist.is_transform_set, matplotlib.axes.Axes.get_legend_handles_labels, matplotlib.axes.Axes.get_xmajorticklabels, matplotlib.axes.Axes.get_xminorticklabels, matplotlib.axes.Axes.get_ymajorticklabels, matplotlib.axes.Axes.get_yminorticklabels, matplotlib.axes.Axes.get_rasterization_zorder, matplotlib.axes.Axes.set_rasterization_zorder, matplotlib.axes.Axes.get_xaxis_text1_transform, matplotlib.axes.Axes.get_xaxis_text2_transform, matplotlib.axes.Axes.get_yaxis_text1_transform, matplotlib.axes.Axes.get_yaxis_text2_transform, matplotlib.axes.Axes.get_default_bbox_extra_artists, matplotlib.axes.Axes.get_transformed_clip_path_and_affine, matplotlib.axis.Axis.remove_overlapping_locs, matplotlib.axis.Axis.get_remove_overlapping_locs, matplotlib.axis.Axis.set_remove_overlapping_locs, matplotlib.axis.Axis.get_ticklabel_extents, matplotlib.axis.YAxis.set_offset_position, matplotlib.axis.Axis.limit_range_for_scale, matplotlib.axis.Axis.set_default_intervals, matplotlib.colors.LinearSegmentedColormap, matplotlib.colors.get_named_colors_mapping, matplotlib.gridspec.GridSpecFromSubplotSpec, matplotlib.pyplot.install_repl_displayhook, matplotlib.pyplot.uninstall_repl_displayhook, matplotlib.pyplot.get_current_fig_manager, mpl_toolkits.mplot3d.axes3d.Axes3D.scatter, mpl_toolkits.mplot3d.axes3d.Axes3D.plot_surface, mpl_toolkits.mplot3d.axes3d.Axes3D.plot_wireframe, 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mpl_toolkits.mplot3d.axes3d.Axes3D.zaxis_inverted, mpl_toolkits.mplot3d.axes3d.Axes3D.get_zbound, mpl_toolkits.mplot3d.axes3d.Axes3D.set_zbound, mpl_toolkits.mplot3d.axes3d.Axes3D.set_zlabel, mpl_toolkits.mplot3d.axes3d.Axes3D.get_zlabel, mpl_toolkits.mplot3d.axes3d.Axes3D.set_title, mpl_toolkits.mplot3d.axes3d.Axes3D.set_xscale, mpl_toolkits.mplot3d.axes3d.Axes3D.set_yscale, mpl_toolkits.mplot3d.axes3d.Axes3D.set_zscale, mpl_toolkits.mplot3d.axes3d.Axes3D.get_zscale, mpl_toolkits.mplot3d.axes3d.Axes3D.set_zmargin, mpl_toolkits.mplot3d.axes3d.Axes3D.margins, mpl_toolkits.mplot3d.axes3d.Axes3D.autoscale, mpl_toolkits.mplot3d.axes3d.Axes3D.autoscale_view, mpl_toolkits.mplot3d.axes3d.Axes3D.set_autoscalez_on, mpl_toolkits.mplot3d.axes3d.Axes3D.get_autoscalez_on, mpl_toolkits.mplot3d.axes3d.Axes3D.auto_scale_xyz, mpl_toolkits.mplot3d.axes3d.Axes3D.set_aspect, mpl_toolkits.mplot3d.axes3d.Axes3D.set_box_aspect, mpl_toolkits.mplot3d.axes3d.Axes3D.apply_aspect, 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mpl_toolkits.mplot3d.art3d.Poly3DCollection, mpl_toolkits.mplot3d.art3d.get_dir_vector, mpl_toolkits.mplot3d.art3d.line_collection_2d_to_3d, mpl_toolkits.mplot3d.art3d.patch_2d_to_3d, mpl_toolkits.mplot3d.art3d.patch_collection_2d_to_3d, mpl_toolkits.mplot3d.art3d.pathpatch_2d_to_3d, mpl_toolkits.mplot3d.art3d.poly_collection_2d_to_3d, mpl_toolkits.mplot3d.proj3d.inv_transform, mpl_toolkits.mplot3d.proj3d.persp_transformation, mpl_toolkits.mplot3d.proj3d.proj_trans_points, mpl_toolkits.mplot3d.proj3d.proj_transform, mpl_toolkits.mplot3d.proj3d.proj_transform_clip, mpl_toolkits.mplot3d.proj3d.view_transformation, mpl_toolkits.mplot3d.proj3d.world_transformation, mpl_toolkits.axes_grid1.anchored_artists.AnchoredAuxTransformBox, mpl_toolkits.axes_grid1.anchored_artists.AnchoredDirectionArrows, mpl_toolkits.axes_grid1.anchored_artists.AnchoredDrawingArea, mpl_toolkits.axes_grid1.anchored_artists.AnchoredEllipse, mpl_toolkits.axes_grid1.anchored_artists.AnchoredSizeBar, mpl_toolkits.axes_grid1.axes_divider.AxesDivider, mpl_toolkits.axes_grid1.axes_divider.AxesLocator, mpl_toolkits.axes_grid1.axes_divider.Divider, mpl_toolkits.axes_grid1.axes_divider.HBoxDivider, mpl_toolkits.axes_grid1.axes_divider.SubplotDivider, mpl_toolkits.axes_grid1.axes_divider.VBoxDivider, mpl_toolkits.axes_grid1.axes_divider.make_axes_area_auto_adjustable, mpl_toolkits.axes_grid1.axes_divider.make_axes_locatable, mpl_toolkits.axes_grid1.axes_grid.AxesGrid, mpl_toolkits.axes_grid1.axes_grid.CbarAxesBase, mpl_toolkits.axes_grid1.axes_grid.ImageGrid, mpl_toolkits.axes_grid1.axes_rgb.make_rgb_axes, mpl_toolkits.axes_grid1.axes_size.AddList, mpl_toolkits.axes_grid1.axes_size.Fraction, mpl_toolkits.axes_grid1.axes_size.GetExtentHelper, mpl_toolkits.axes_grid1.axes_size.MaxExtent, mpl_toolkits.axes_grid1.axes_size.MaxHeight, mpl_toolkits.axes_grid1.axes_size.MaxWidth, mpl_toolkits.axes_grid1.axes_size.Scalable, mpl_toolkits.axes_grid1.axes_size.SizeFromFunc, mpl_toolkits.axes_grid1.axes_size.from_any, mpl_toolkits.axes_grid1.inset_locator.AnchoredLocatorBase, mpl_toolkits.axes_grid1.inset_locator.AnchoredSizeLocator, mpl_toolkits.axes_grid1.inset_locator.AnchoredZoomLocator, mpl_toolkits.axes_grid1.inset_locator.BboxConnector, mpl_toolkits.axes_grid1.inset_locator.BboxConnectorPatch, mpl_toolkits.axes_grid1.inset_locator.BboxPatch, mpl_toolkits.axes_grid1.inset_locator.InsetPosition, mpl_toolkits.axes_grid1.inset_locator.inset_axes, mpl_toolkits.axes_grid1.inset_locator.mark_inset, mpl_toolkits.axes_grid1.inset_locator.zoomed_inset_axes, mpl_toolkits.axes_grid1.mpl_axes.SimpleAxisArtist, mpl_toolkits.axes_grid1.mpl_axes.SimpleChainedObjects, mpl_toolkits.axes_grid1.parasite_axes.HostAxes, mpl_toolkits.axes_grid1.parasite_axes.HostAxesBase, mpl_toolkits.axes_grid1.parasite_axes.ParasiteAxes, mpl_toolkits.axes_grid1.parasite_axes.ParasiteAxesBase, mpl_toolkits.axes_grid1.parasite_axes.SubplotHost, mpl_toolkits.axes_grid1.parasite_axes.host_axes, mpl_toolkits.axes_grid1.parasite_axes.host_axes_class_factory, mpl_toolkits.axes_grid1.parasite_axes.host_subplot, mpl_toolkits.axes_grid1.parasite_axes.host_subplot_class_factory, mpl_toolkits.axes_grid1.parasite_axes.parasite_axes_class_factory, mpl_toolkits.axisartist.angle_helper.ExtremeFinderCycle, mpl_toolkits.axisartist.angle_helper.FormatterDMS, mpl_toolkits.axisartist.angle_helper.FormatterHMS, mpl_toolkits.axisartist.angle_helper.LocatorBase, mpl_toolkits.axisartist.angle_helper.LocatorD, mpl_toolkits.axisartist.angle_helper.LocatorDM, mpl_toolkits.axisartist.angle_helper.LocatorDMS, mpl_toolkits.axisartist.angle_helper.LocatorH, mpl_toolkits.axisartist.angle_helper.LocatorHM, mpl_toolkits.axisartist.angle_helper.LocatorHMS, mpl_toolkits.axisartist.angle_helper.select_step, mpl_toolkits.axisartist.angle_helper.select_step24, mpl_toolkits.axisartist.angle_helper.select_step360, mpl_toolkits.axisartist.angle_helper.select_step_degree, mpl_toolkits.axisartist.angle_helper.select_step_hour, mpl_toolkits.axisartist.angle_helper.select_step_sub, mpl_toolkits.axisartist.axes_grid.AxesGrid, mpl_toolkits.axisartist.axes_grid.ImageGrid, mpl_toolkits.axisartist.axis_artist.AttributeCopier, mpl_toolkits.axisartist.axis_artist.AxisArtist, mpl_toolkits.axisartist.axis_artist.AxisLabel, mpl_toolkits.axisartist.axis_artist.GridlinesCollection, mpl_toolkits.axisartist.axis_artist.LabelBase, mpl_toolkits.axisartist.axis_artist.TickLabels, mpl_toolkits.axisartist.axis_artist.Ticks, mpl_toolkits.axisartist.axisline_style.AxislineStyle, mpl_toolkits.axisartist.axislines.AxesZero, mpl_toolkits.axisartist.axislines.AxisArtistHelper, mpl_toolkits.axisartist.axislines.AxisArtistHelperRectlinear, mpl_toolkits.axisartist.axislines.GridHelperBase, mpl_toolkits.axisartist.axislines.GridHelperRectlinear, mpl_toolkits.axisartist.axislines.Subplot, mpl_toolkits.axisartist.axislines.SubplotZero, mpl_toolkits.axisartist.floating_axes.ExtremeFinderFixed, mpl_toolkits.axisartist.floating_axes.FixedAxisArtistHelper, mpl_toolkits.axisartist.floating_axes.FloatingAxes, mpl_toolkits.axisartist.floating_axes.FloatingAxesBase, mpl_toolkits.axisartist.floating_axes.FloatingAxisArtistHelper, mpl_toolkits.axisartist.floating_axes.FloatingSubplot, mpl_toolkits.axisartist.floating_axes.GridHelperCurveLinear, mpl_toolkits.axisartist.floating_axes.floatingaxes_class_factory, mpl_toolkits.axisartist.grid_finder.DictFormatter, mpl_toolkits.axisartist.grid_finder.ExtremeFinderSimple, mpl_toolkits.axisartist.grid_finder.FixedLocator, mpl_toolkits.axisartist.grid_finder.FormatterPrettyPrint, mpl_toolkits.axisartist.grid_finder.GridFinder, mpl_toolkits.axisartist.grid_finder.MaxNLocator, mpl_toolkits.axisartist.grid_helper_curvelinear, mpl_toolkits.axisartist.grid_helper_curvelinear.FixedAxisArtistHelper, mpl_toolkits.axisartist.grid_helper_curvelinear.FloatingAxisArtistHelper, mpl_toolkits.axisartist.grid_helper_curvelinear.GridHelperCurveLinear.

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