scverse/spatialdata-plot

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Static plotting for spatialdata

Stars: 86
Forks: 21
Open beginner issues: 0
Indexed issues: 20
Avg merge: 14h 50m
Merged PRs (30d): 3

Dominant language: Python
License: BSD-3-Clause
Last GitHub push: Aug 31, 2026
Latest indexed: Sep 19, 2026
Contributing guide: Contributing guide
Code of conduct: Code of conduct
Beginner labels: No beginner labels indexed

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20 issues indexed so far

Outline color palette is ignored in `render_shapes` if no color is passed Open

bug

Difficulty 3/5 1-2 days Newbie friendliness 68/100

scverse/spatialdata-plot#777 · Opened Sep 16, 2026
render_labels raises IndexError when the table has rows for instances absent from the mask Open

Difficulty 2/5 1-3 hours Newbie friendliness 84/100

scverse/spatialdata-plot#775 · Opened Sep 4, 2026
`pl.show()` leading to `ValueError` due to mismatch between number of axes and number of panels Open

Difficulty 3/5 1-2 days Newbie friendliness 45/100

scverse/spatialdata-plot#749 · 1 comment · Opened Jul 2, 2026
Make annotator widget available in `marimo` by using `anywidget` Open

Difficulty 4/5 3-5 days Newbie friendliness 48/100

scverse/spatialdata-plot#747 · Opened Jun 27, 2026
Additive RGB color blending for render_shapes / render_labels (and render_points) Open

Difficulty 5/5 Over a week Newbie friendliness 45/100

scverse/spatialdata-plot#677 · Opened May 20, 2026
No support for .obsm keys as color source in render functions Open

enhancement priority: medium utils :wrench:

Difficulty 3/5 1-2 days Newbie friendliness 68/100

scverse/spatialdata-plot#632 · Opened Apr 24, 2026
Failing to recreate Xenium Exlorer-style multi-stain segmentation panel plot Open

Difficulty 4/5 3-5 days Newbie friendliness 45/100

scverse/spatialdata-plot#534 · 1 comment · Opened Feb 3, 2026
Enable auto-completion Open

Difficulty 4/5 3-5 days Newbie friendliness 30/100

scverse/spatialdata-plot#476 · Opened Jul 18, 2025
Adding plotting specific documentation Open

documentation spatialproteomics

Difficulty 3/5 1-2 days Newbie friendliness 65/100

scverse/spatialdata-plot#463 · 1 comment · Opened May 13, 2025
Feature: PCA aggregation for n >= 4 channels in render_images Open

enhancement images :framed_picture:

Difficulty 5/5 Over a week Newbie friendliness 38/100

scverse/spatialdata-plot#450 · 2 comments · Opened Apr 22, 2025
Vega-like viewconfigurations Open

Difficulty 5/5 Over a week Newbie friendliness 20/100

scverse/spatialdata-plot#388 · 1 comment · Opened Nov 13, 2024
Feature request: visualizing individual z-planes (2.5D) Open

Difficulty 5/5 Over a week Newbie friendliness 30/100

scverse/spatialdata-plot#386 · Opened Nov 8, 2024
Q: How to render xenium morphology image with original colors? Open

images :framed_picture: needs info priority: low

Difficulty 4/5 3-5 days Newbie friendliness 25/100

scverse/spatialdata-plot#370 · 15 comments · Opened Oct 9, 2024
Interpolation problem for sparse image data? Open

Difficulty 3/5 1-2 days Newbie friendliness 48/100

scverse/spatialdata-plot#351 · 2 comments · Opened Sep 8, 2024
Enhancement: Rasterization changes the value-range of the image. Open

enhancement priority: low

Difficulty 2/5 1-3 hours Newbie friendliness 45/100

scverse/spatialdata-plot#350 · 1 reaction · Opened Sep 4, 2024
3D visualize Open

Difficulty 5/5 Over a week Newbie friendliness 25/100

scverse/spatialdata-plot#385 · 3 comments · Opened Aug 18, 2024
Custom title when multiple coordinate system present and no coordinate system specified Open

:speaking_head: discussion enhancement priority: medium

Difficulty 4/5 3-5 days Newbie friendliness 35/100

scverse/spatialdata-plot#269 · 1 comment · Opened May 30, 2024
Reproduce Napari visualizations Open

enhancement

Difficulty 5/5 Over a week Newbie friendliness 30/100

scverse/spatialdata-plot#189 · 3 comments · Opened Nov 29, 2023
Feature request: remove need for intermediate pl calls when chaining renderers Open

enhancement priority: low

Difficulty 5/5 Over a week Newbie friendliness 25/100

scverse/spatialdata-plot#54 · 2 comments · 1 reaction · Opened Apr 14, 2023
consider removing `_copy` private method Open

enhancement priority: low

Difficulty 4/5 3-5 days Newbie friendliness 35/100

scverse/spatialdata-plot#47 · Opened Apr 7, 2023

scverse/spatialdata-plot

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