Stuck on an issue?

Lightrun Answers was designed to reduce the constant googling that comes with debugging 3rd party libraries. It collects links to all the places you might be looking at while hunting down a tough bug.

And, if you’re still stuck at the end, we’re happy to hop on a call to see how we can help out.

Make plot_scatter() available to user

See original GitHub issue

Currently, if users are to make scatter plots based on non-standard embeddings, they use sc.pl.scatter(), which is functionally similar to plot_scatter() but not exactly the same. Be able to plot non-standard embeddings alongside standard embeddings (e.g. using sc.pl.umap()) in exactly the same size and style is often desired. For this reason, do you think it’s ok to export plot_scatter() or even export it as sc.pl.scatter()? Many thanks!

Issue Analytics

State:
Created 4 years ago
Comments:14 (11 by maintainers)

Top GitHub Comments

1reaction

ivirshupcommented, Nov 14, 2019

@flying-sheep, didn’t @fidelram implement this as sc.pl.embedding in #794? I think it got discussed in a different issue (https://github.com/theislab/scanpy/issues/762#issuecomment-517978906), so this didn’t get closed.

1reaction

VolkerBergencommented, Nov 13, 2019

In scvelo I have decided to handle everything within one single pl.scatter module, where you can pass anything to basis, x, y and color from obs/var keys to arrays to lists of such. The implementation is rather simple and condensed, and @flying-sheep I’m happy to support you if (partly) merging into scanpy sounds reasonable to you.

You find some exemplary use cases in this notebook: https://scvelo-notebooks.readthedocs.io/Pancreas.html

Top Results From Across the Web

Visualizing Data in Python Using plt.scatter()

Create a scatter plot using plt.scatter(); Use the required and optional input parameters; Customize scatter plots for basic and more advanced plots; Represent ......

A Complete Guide to Scatter Plots - Chartio

Scatter plots are an essential type of data visualization that shows relationships between variables. Use this tutorial to learn how to use this...

Simple Scatter Plots | Python Data Science Handbook

Another commonly used plot type is the simple scatter plot, a close cousin of the line plot. Instead of points being joined by...

Python Scatter Plot - How to visualize relationship between ...

Scatter plot is a graph of two sets of data along the two axes. ... Then use the plt.scatter() function to draw a...

Scatter plot - MATLAB scatter - MathWorks

This MATLAB function creates a scatter plot with circular markers at the locations specified by the vectors x and y.