Ecosyste.ms: Issues

An open API service for providing issue and pull request metadata for open source projects.

GitHub / scverse/spatialdata-plot issues and pull requests

#408 - [pre-commit.ci] pre-commit autoupdate

Pull Request - State: closed - Opened by pre-commit-ci[bot] 18 days ago - 1 comment
Labels: release-ignore

#407 - Plot image in grayscale

Issue - State: open - Opened by grst 19 days ago - 2 comments
Labels: enhancement, images :framed_picture:

#406 - Images with alpha channel being plotted incorrectly

Issue - State: open - Opened by ivirshup 22 days ago - 1 comment
Labels: bug, priority: medium, images :framed_picture:

#404 - [pre-commit.ci] pre-commit autoupdate

Pull Request - State: closed - Opened by pre-commit-ci[bot] 25 days ago - 1 comment

#403 - render_labels color plot no longer working

Issue - State: open - Opened by mezwick 30 days ago

#402 - Can now specify which 'layer' of the AnnData table to use

Pull Request - State: closed - Opened by Sonja-Stockhaus about 1 month ago - 6 comments
Labels: release-added

#401 - [pre-commit.ci] pre-commit autoupdate

Pull Request - State: closed - Opened by pre-commit-ci[bot] about 1 month ago - 1 comment

#400 - Improved the release process

Pull Request - State: closed - Opened by LucaMarconato about 1 month ago - 1 comment

#399 - Which is the truth: datashader VS matplotlib

Issue - State: open - Opened by sunshx-bioinfo about 1 month ago - 1 comment

#398 - Issue in plotting cell labels by celltype colour for Xenium

Issue - State: open - Opened by OnkarMulay about 2 months ago - 1 comment

#397 - Adde guide for visual testing

Pull Request - State: closed - Opened by LucaMarconato about 2 months ago - 4 comments
Labels: release-added

#396 - allow plotting with mismatch between element and table

Pull Request - State: closed - Opened by melonora about 2 months ago - 2 comments

#395 - added tests for plotting columns from points

Pull Request - State: closed - Opened by LucaMarconato about 2 months ago - 3 comments
Labels: release-added

#394 - Missing tests for plotting columns into points

Issue - State: open - Opened by LucaMarconato about 2 months ago

#393 - Tightened type-checking of color input

Pull Request - State: closed - Opened by LucaMarconato about 2 months ago - 8 comments

#391 - pl.render_shapes do not support normal hex color

Issue - State: open - Opened by wangjiawen2013 2 months ago - 4 comments

#390 - render_labels plots can not show any legend

Issue - State: open - Opened by liuyang2006 3 months ago - 1 comment

#389 - Render_points breaks with scanpy=1.10.4

Issue - State: closed - Opened by ckmah 3 months ago - 3 comments

#388 - Vega-like viewconfigurations

Issue - State: open - Opened by melonora 3 months ago - 1 comment

#387 - migrate pre-commit config

Pull Request - State: closed - Opened by melonora 3 months ago

#385 - 3D visualize

Issue - State: open - Opened by Yifan-debug 6 months ago - 3 comments

#384 - Do transformations affect Points?

Issue - State: closed - Opened by BaldanMatt 3 months ago - 1 comment

#383 - Migrate GitHub actions to Python 3.10 and 3.12

Issue - State: closed - Opened by timtreis 3 months ago - 1 comment
Labels: housekeeping :broom:

#382 - Missing visualizations tutorials in documentation

Issue - State: closed - Opened by ConstensouxAlexis 3 months ago - 1 comment
Labels: documentation, priority: medium

#381 - Transformations with flipped y-axis

Issue - State: open - Opened by Sonja-Stockhaus 3 months ago - 3 comments
Labels: shapes :bubbles:, :speaking_head: discussion

#380 - support for datatree from xarray

Pull Request - State: closed - Opened by melonora 3 months ago - 1 comment

#379 - Datashader doesn't speed up rendering of points

Issue - State: open - Opened by timtreis 4 months ago - 1 comment
Labels: bug, priority: low, points :abacus:

#378 - Transformations are applied before rendering with datashader

Pull Request - State: closed - Opened by Sonja-Stockhaus 4 months ago - 2 comments
Labels: release-fixed

#377 - MAYBE: Can we select channels for multi-scale images?

Issue - State: open - Opened by timtreis 4 months ago - 5 comments
Labels: bug, priority: low, images :framed_picture:

#375 - Error when selecting more than two values in groups for render_shapes()

Issue - State: open - Opened by Zejian-Wang 4 months ago
Labels: bug, priority: medium, shapes :bubbles:

#373 - `render_labels` returns uniform color in large images

Issue - State: closed - Opened by AdnanAbouelela 4 months ago - 2 comments

#372 - Missing tests for norm=Normalize(...)

Issue - State: open - Opened by Sonja-Stockhaus 4 months ago - 4 comments
Labels: bug, documentation

#371 - Image rendering is very slow for xenium morphology image

Issue - State: closed - Opened by tsvvas 4 months ago - 2 comments

#370 - Q: How to render xenium morphology image with original colors?

Issue - State: open - Opened by tsvvas 4 months ago - 15 comments
Labels: needs info, priority: low, images :framed_picture:

#369 - Fix validate image parameters method for multiscale images

Pull Request - State: closed - Opened by Sonja-Stockhaus 4 months ago - 1 comment

#368 - Fix clims when plotting shapes element annotations with matplotlib rendering

Pull Request - State: closed - Opened by melonora 4 months ago - 4 comments

#367 - Datashader shapes outlines and fill_alpha documentation

Issue - State: open - Opened by Sonja-Stockhaus 4 months ago - 7 comments
Labels: enhancement, priority: low, shapes :bubbles:

#366 - 'SpatialData' object has no attribute 'pp'

Issue - State: closed - Opened by lg907 4 months ago - 2 comments
Labels: bug, documentation, priority: low

#365 - Hiding the colorbar

Issue - State: open - Opened by LucaMarconato 4 months ago

#364 - When multiple categories are plotted, only one legend is shown, and colors do not match

Issue - State: open - Opened by LucaMarconato 4 months ago - 3 comments
Labels: bug, enhancement, priority: medium, labels :label:

#363 - Different plot when running as script vs Jupyter/Console

Issue - State: open - Opened by LucaMarconato 4 months ago
Labels: bug

#362 - Cannot combine shapes and images on the same axes in separate calls.

Issue - State: open - Opened by LucaMarconato 4 months ago
Labels: bug, priority: low

#361 - Discussion: add title to multiple colorbars?

Issue - State: open - Opened by LucaMarconato 4 months ago - 1 comment
Labels: :speaking_head: discussion

#360 - setting `cmap` for multiscale image leads to error

Issue - State: closed - Opened by LucaMarconato 4 months ago - 1 comment
Labels: bug, priority: medium, images :framed_picture:

#359 - Can not display color for render_shapes

Issue - State: open - Opened by Lings01 4 months ago - 1 comment

#358 - Categorical colors wrongly assigned to points

Issue - State: open - Opened by LucaMarconato 5 months ago

#357 - Using groups in pl.render_shapes() fails with large data

Issue - State: closed - Opened by ConstensouxAlexis 5 months ago - 3 comments

#356 - [pre-commit.ci] pre-commit autoupdate

Pull Request - State: closed - Opened by pre-commit-ci[bot] 5 months ago - 1 comment

#355 - Categorical color obs column crashes the plotting

Issue - State: open - Opened by sinanugur 5 months ago - 2 comments
Labels: bug, priority: medium, shapes :bubbles:

#354 - Using `cmap`s fails when rendering multiscale images

Issue - State: closed - Opened by gdurif 5 months ago - 4 comments
Labels: bug, priority: medium, images :framed_picture:

#352 - [pre-commit.ci] pre-commit autoupdate

Pull Request - State: closed - Opened by pre-commit-ci[bot] 5 months ago - 1 comment

#351 - Interpolation problem for sparse image data?

Issue - State: open - Opened by LucaMarconato 5 months ago

#350 - Enhancement: Rasterization changes the value-range of the image.

Issue - State: open - Opened by timtreis 5 months ago
Labels: enhancement, priority: low

#349 - Refactoring of colorbar logic

Pull Request - State: open - Opened by timtreis 5 months ago - 2 comments

#348 - Enhancement: Make colorbar the same height as the `ax`

Issue - State: open - Opened by timtreis 5 months ago
Labels: enhancement, priority: low

#347 - Updated CHANGELOG for release

Pull Request - State: closed - Opened by timtreis 5 months ago - 1 comment

#346 - Refactor of `colorbar` and `norm` logic

Pull Request - State: closed - Opened by timtreis 5 months ago - 5 comments

#345 - When subsetting by `groups` in `render_labels`, the non-selected are set to white and not `na_color`

Issue - State: closed - Opened by timtreis 5 months ago
Labels: bug, priority: medium, labels :label:

#344 - Coloring labels by a continuous variable fixed

Pull Request - State: closed - Opened by timtreis 5 months ago - 2 comments

#343 - [pre-commit.ci] pre-commit autoupdate

Pull Request - State: closed - Opened by pre-commit-ci[bot] 5 months ago - 1 comment

#342 - Coloring labels by a continuous variable appears to be broken (labels associated with wrong colors)

Issue - State: closed - Opened by clwgg 5 months ago - 1 comment
Labels: bug, priority: high, labels :label:

#341 - hotfix

Pull Request - State: closed - Opened by timtreis 5 months ago - 1 comment

#340 - Error when `xyz_colors` in `adata.uns` and `na_color` have different formats

Issue - State: closed - Opened by timtreis 5 months ago
Labels: bug, priority: high, labels :label:, tables :spiral_calendar:

#339 - No longer failing when `xyz` is in adata.uns but not `xyz_colors`

Pull Request - State: closed - Opened by timtreis 5 months ago - 1 comment

#338 - Updated changelog for release

Pull Request - State: closed - Opened by timtreis 5 months ago - 1 comment

#337 - Points not transformed when `method="datashader"`

Issue - State: closed - Opened by clwgg 5 months ago - 5 comments
Labels: bug, priority: medium, points :abacus:

#336 - Refactor of labels logic

Pull Request - State: closed - Opened by timtreis 5 months ago - 1 comment

#335 - `contour_px` not respected when `outline_alpha` == `fill_alpha`

Issue - State: closed - Opened by timtreis 5 months ago - 1 comment
Labels: bug, invalid, priority: low, labels :label:

#334 - Donut-MultiPolygons are now correctly rendered again

Pull Request - State: closed - Opened by timtreis 5 months ago - 1 comment

#333 - MultiPolygons with holes are broken

Issue - State: closed - Opened by timtreis 5 months ago
Labels: bug, priority: high, shapes :bubbles:

#332 - Coloring by column fails when key (f.e. `xyz`) is in .uns but not default scanpy color info (`xyz_colors`)

Issue - State: closed - Opened by timtreis 5 months ago
Labels: bug, priority: medium, labels :label:, tables :spiral_calendar:

#331 - String column names in [0, 1] are now no longer interpreted as colors

Pull Request - State: closed - Opened by timtreis 5 months ago - 1 comment

#330 - Issue of annotations of table

Issue - State: closed - Opened by Nazim0001 10 months ago - 17 comments

#329 - Removed `.pp` accessor

Pull Request - State: closed - Opened by timtreis 6 months ago - 2 comments

#328 - Unable to plot categorical columns

Issue - State: closed - Opened by gboscagli 6 months ago - 15 comments

#327 - If an obs column name is 0 or 1, they are not displayed by pl.render_shapes method

Issue - State: closed - Opened by sinanugur 6 months ago - 9 comments
Labels: bug, priority: low, shapes :bubbles:

#326 - Cannot pass `layer ` selection of anndata

Issue - State: closed - Opened by wangjiawen2013 6 months ago - 2 comments
Labels: enhancement, priority: high, tables :spiral_calendar:

#325 - Bug in the MERFISH Technology tutorial

Issue - State: open - Opened by Marius1311 6 months ago - 1 comment

#324 - Unable to set vmin vmax when plotting vector data

Issue - State: closed - Opened by wangjiawen2013 6 months ago - 25 comments
Labels: bug, shapes :bubbles:

#323 - Categorical data is now correctly colored in the legend when plotting v2

Pull Request - State: closed - Opened by timtreis 6 months ago - 1 comment

#321 - Plotting multiple genes

Issue - State: open - Opened by wangjiawen2013 6 months ago - 2 comments
Labels: enhancement, needs info, priority: low, :speaking_head: discussion

#320 - sdata.pl.render_points() works weird

Issue - State: closed - Opened by wangjiawen2013 6 months ago - 2 comments

#319 - [pre-commit.ci] pre-commit autoupdate

Pull Request - State: closed - Opened by pre-commit-ci[bot] 6 months ago

#318 - legend height cannot be adjusted

Issue - State: open - Opened by wangjiawen2013 6 months ago
Labels: enhancement, priority: low

#317 - figures sharpness

Issue - State: open - Opened by wangjiawen2013 6 months ago - 10 comments
Labels: :speaking_head: discussion

#315 - Point sizes disagree between matplotlib and datashader

Issue - State: closed - Opened by Sonja-Stockhaus 6 months ago - 4 comments
Labels: bug

#314 - Datashader aggregation function can't be specified by user

Issue - State: closed - Opened by Sonja-Stockhaus 6 months ago
Labels: enhancement

#313 - [pre-commit.ci] pre-commit autoupdate

Pull Request - State: closed - Opened by pre-commit-ci[bot] 6 months ago - 1 comment

#312 - [pre-commit.ci] pre-commit autoupdate

Pull Request - State: closed - Opened by pre-commit-ci[bot] 7 months ago - 1 comment

#311 - Wrong colors when using `method='datashader'`

Issue - State: closed - Opened by LucaMarconato 7 months ago - 4 comments
Labels: bug, priority: medium, shapes :bubbles:

#310 - Different plot if specifying `dpi=` in `plt.figure()` vs in `pl.show()`

Issue - State: open - Opened by LucaMarconato 7 months ago - 2 comments
Labels: priority: low

#309 - datashader speedup and bugfixes

Pull Request - State: closed - Opened by Sonja-Stockhaus 7 months ago - 16 comments
Labels: bug, priority: high, points :abacus:, shapes :bubbles: