scverse spatialdata issues

scverse / spatialdata

An open and interoperable data framework for spatial omics data

https://spatialdata.scverse.org/

BSD 3-Clause "New" or "Revised" License

237 stars 45 forks source link

issues

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Rename SpatialElements

#793 Marius1311 opened 1 hour ago
0
update multiscale-spatial-image dependency

#792 melonora closed 1 day ago
1
Fix `transform_to_data_extent` converting labels to images

#791 aeisenbarth opened 3 days ago
2
[pre-commit.ci] pre-commit autoupdate

#790 pre-commit-ci[bot] opened 3 days ago
1
idea: point on-disk representation using OME-NGFF

#789 keller-mark opened 1 week ago
0
bug with 3d data test in transform_to_data_extent

#787 LucaMarconato opened 1 week ago
2
change channel names

#786 melonora closed 9 hours ago
2
Adding glossary + refactor API reference display

#785 quentinblampey opened 1 week ago
1
[WIP] add asv benchmark code

#784 berombau opened 1 week ago
1
`rasterize` converts labels to images

#783 aeisenbarth opened 1 week ago
0
Add a glossary in the docs

#782 quentinblampey opened 1 week ago
0
Update contributing.md

#781 berombau opened 1 week ago
1
Annotating coordinate systems

#780 LucaMarconato opened 1 week ago
1
Move c_coords out of kwargs

#779 melonora closed 1 week ago
4
Added a spatialdata-io mirror

#778 quentinblampey opened 1 week ago
1
add warning when running bounding box query if points is present

#777 BioinfoTongLI opened 1 week ago
1
Cannot write sdata with tables to external SSD

#776 josenimo closed 1 week ago
2
Brainstorm spatialdataDB

#775 lopollar opened 1 week ago
2
Recommending a workflow for tiling (deep learning use case)

#774 berombau opened 1 week ago
0
reticulate spatialdata-io for readers & writing SpatialData .zarr

#773 HelenaLC opened 1 week ago
0
Convenient function to read shapes and add them to the SpatialData object

#772 quentinblampey closed 1 week ago
1
migrated pre-commit config

#771 melonora closed 1 week ago
1
Minor ergonomics/usability improvements

#770 quentinblampey opened 2 weeks ago
2
Choosing a performance profiling framework

#769 berombau opened 2 weeks ago
1
User documentation on how to setup jobs or run large analysis

#768 berombau opened 2 weeks ago
1
Use numba jit instead of njit to remove warning

#767 quentinblampey closed 1 week ago
1
Technology focus: Xenium is missing from read the docs.io

#766 OnkarMulay closed 2 weeks ago
0
Partial reading

#765 aeisenbarth opened 2 weeks ago
1
Developer documentation on how to profile for performance

#764 berombau opened 2 weeks ago
3
User documentation on different methods of benchmarking with SpatialData

#763 berombau opened 2 weeks ago
0
User notebook showcasing SpatialData speed

#762 berombau opened 2 weeks ago
1
update changelog

#761 melonora closed 2 weeks ago
1
hotfix multiscale spatial image

#760 melonora closed 2 weeks ago
1
update changelog

#759 melonora closed 2 weeks ago
1
Changelog

#758 melonora closed 2 weeks ago
0
(fix): upper bound xarray

#757 ilan-gold closed 2 weeks ago
2
fix for to_polygons when using processes instead of threads in dask

#756 ArneDefauw opened 2 weeks ago
1
Having auto-completion when using spatialdata-plot

#755 quentinblampey opened 2 weeks ago
0
Access spatialdata-io from spatialdata

#754 quentinblampey opened 2 weeks ago
0
Organizing the docs API into sections

#753 quentinblampey opened 2 weeks ago
0
adjust to xarray datatree

#752 melonora closed 1 week ago
2
New docs section: how to integrate `spatialdata` in your tool

#751 LucaMarconato opened 3 weeks ago
1
Improving ergonomics for channel names handling

#750 LucaMarconato closed 1 week ago
2
New easier table notebook

#749 LucaMarconato opened 3 weeks ago
1
New easier intro notebooks

#748 LucaMarconato opened 3 weeks ago
1
Make a biological transformation notebook

#747 LucaMarconato opened 3 weeks ago
1
CLI for `get_data_extent()` and `bounding_box_query()`

#746 LucaMarconato opened 3 weeks ago
0
CLI for modular creation/edit/concatenation of `SpatialData` objects

#745 LucaMarconato opened 3 weeks ago
0
Faster version `aggregate()` method available

#744 LucaMarconato opened 3 weeks ago
2
Parallelize `aggregate()`

#743 LucaMarconato opened 3 weeks ago
1