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docs: add interoperability page - #1180

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Closes#1176. Preview: https://scverse-spatialdata--1180.org.readthedocs.build/en/1180/interoperability.html

Adds a short Interoperability page listing the non-Python interfaces to the SpatialData on-disk format, following the structure of the equivalent page in mudata and the one in anndata, as requested by @Zethson so the style is consistent across the three data structures.

Sections: R (spatialdataR), JavaScript and TypeScript (SpatialData.js, Vitessce), and a short File format note (to be expanded into its osn tab later).

napari-spatialdata is not listed as it's python, relies on the spatialdata python package and does not read on-disk data directly

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Codecov Report

✅ All modified and coverable lines are covered by tests.
✅ Project coverage is 92.41%. Comparing base (21abd1e) to head (8b9ba34).
⚠️ Report is 1 commits behind head on main.

Additional details and impacted files
@@ Coverage Diff @@## main #1180 +/- ##
=======================================
Coverage 92.41% 92.41% =======================================
Files 52 52 Lines 7874 7874 =======================================
Hits 7277 7277 Misses 597 597
Files with missing linesCoverage Δ
src/spatialdata/_io/io_zarr.py92.38% <100.00%> (ø)
🚀 New features to boost your workflow:
  • ❄️ Test Analytics: Detect flaky tests, report on failures, and find test suite problems.

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jan-glx marked this pull request as draft August 18, 2026 16:05
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Updated: the file-format section now links scverse/spatialdata-spec directly, as originally suggested, alongside the pointer to design_doc.md.

Flagging for visibility: that repository is still private, so the link will 404 for anyone outside the org until it is made public. The design-document link next to it keeps the section useful in the meantime.

@jan-glx
docs: add interoperability page
9c26df3
Closesscverse#1176.
Adds a short Interoperability page listing non-Python interfaces to the
SpatialData on-disk format, mirroring the equivalent pages in anndata and
mudata so the style is consistent across the three data structures.
Also notes that the format builds on OME-NGFF and points at the design
document for the current on-disk layout.
@jan-glx
jan-glxforce-pushed the docs/interoperability branch from aa81aa9 to 9c26df3CompareAugust 18, 2026 16:43
@jan-glx
jan-glx marked this pull request as ready for review August 18, 2026 16:46
LucaMarconato
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LGTM, thanks!

@LucaMarconato
LucaMarconato enabled auto-merge (squash) August 19, 2026 09:33
@LucaMarconato
LucaMarconato merged commit 4d1020f into scverse:mainAug 19, 2026
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@LucaMarconatoLucaMarconato mentioned this pull request Aug 19, 2026
Merged
Zethson added a commit to scverse/scverse.github.io that referenced this pull request Aug 23, 2026
@Zethson@claude
Cover all three data structures consistently
7a44774
The first pass only named AnnData, in a blurb that heads all three cards.
mudata and spatialdata gained interoperability pages of their own this month (scverse/mudata#189, scverse/spatialdata#1180), so each card now carries an Interoperability link and the section blurb no longer singles one format out.
The mudata card loses its Muon.jl chip: with a sibling Interoperability link that lists Muon.jl alongside the R options, a Julia-only chip reads as arbitrary.
Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Signed-off-by: Lukas Heumos <lukas.heumos@posteo.net>
@ZethsonZethson mentioned this pull request Aug 23, 2026
Open
Zethson added a commit to scverse/scverse.github.io that referenced this pull request Aug 23, 2026
@Zethson
Cover all three data structures consistently
ee8a5ef
The first pass only named AnnData, in a blurb that heads all three cards.
mudata and spatialdata gained interoperability pages of their own this month (scverse/mudata#189, scverse/spatialdata#1180), so each card now carries an Interoperability link and the section blurb no longer singles one format out.
The mudata card loses its Muon.jl chip: with a sibling Interoperability link that lists Muon.jl alongside the R options, a Julia-only chip reads as arbitrary.
Signed-off-by: Lukas Heumos <lukas.heumos@posteo.net>
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Add interoperability documentation page

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docs: add interoperability page by jan-glx · Pull Request #1180 · scverse/spatialdata · GitHub
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docs: add interoperability page - #1180
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jan-glx:docs/interoperability
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Merged
docs: add interoperability page#1180
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Closes#1176. Preview: https://scverse-spatialdata--1180.org.readthedocs.build/en/1180/interoperability.html
Adds a short Interoperability page listing the non-Python interfaces to the SpatialData on-disk format, following the structure of the equivalent page in mudata and the one in anndata, as requested by @Zethson so the style is consistent across the three data structures.
Sections: R (spatialdataR), JavaScript and TypeScript (SpatialData.js, Vitessce), and a short File format note (to be expanded into its osn tab later).
napari-spatialdata is not listed as it's python, relies on the spatialdata python package and does not read on-disk data directly
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Codecov Report
✅ All modified and coverable lines are covered by tests.

✅ Project coverage is 92.41%. Comparing base (21abd1e) to head (8b9ba34).
⚠️ Report is 1 commits behind head on main.
Additional details and impacted files
@@ Coverage Diff @@## main #1180 +/- ##
=======================================
Coverage 92.41% 92.41% =======================================
Files 52 52 Lines 7874 7874 =======================================
Hits 7277 7277 Misses 597 597 
Files with missing linesCoverage Δ
src/spatialdata/_io/io_zarr.py92.38% <100.00%> (ø)
 🚀 New features to boost your workflow: 
  • ❄️ Test Analytics: Detect flaky tests, report on failures, and find test suite problems.
@jan-glx
jan-glx
marked this pull request as draft
August 18, 2026 16:05
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Updated: the file-format section now links scverse/spatialdata-spec directly, as originally suggested, alongside the pointer to design_doc.md.
Flagging for visibility: that repository is still private, so the link will 404 for anyone outside the org until it is made public. The design-document link next to it keeps the section useful in the meantime.
@jan-glx
docs: add interoperability page
9c26df3
Closesscverse#1176.
Adds a short Interoperability page listing non-Python interfaces to the
SpatialData on-disk format, mirroring the equivalent pages in anndata and
mudata so the style is consistent across the three data structures.
Also notes that the format builds on OME-NGFF and points at the design
document for the current on-disk layout.
@jan-glx
jan-glxforce-pushed
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docs/interoperability
branch
from
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9c26df3CompareAugust 18, 2026 16:43
@jan-glx
jan-glx
marked this pull request as ready for review
August 18, 2026 16:46
LucaMarconato
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LGTM, thanks!
@LucaMarconato
LucaMarconato
enabled auto-merge (squash)
August 19, 2026 09:33
@LucaMarconato
LucaMarconato
merged commit 4d1020f
into
scverse:mainAug 19, 2026

10 checks passed

@LucaMarconatoLucaMarconato
mentioned this pull request
Aug 19, 2026
 Merged

Zethson added a commit
to scverse/scverse.github.io
that referenced
this pull request
Aug 23, 2026
@Zethson@claude
Cover all three data structures consistently
7a44774
The first pass only named AnnData, in a blurb that heads all three cards.
mudata and spatialdata gained interoperability pages of their own this month (scverse/mudata#189, scverse/spatialdata#1180), so each card now carries an Interoperability link and the section blurb no longer singles one format out.
The mudata card loses its Muon.jl chip: with a sibling Interoperability link that lists Muon.jl alongside the R options, a Julia-only chip reads as arbitrary.
Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Signed-off-by: Lukas Heumos <lukas.heumos@posteo.net>
@ZethsonZethson
mentioned this pull request
Aug 23, 2026
 Open

Zethson added a commit
to scverse/scverse.github.io
that referenced
this pull request
Aug 23, 2026
@Zethson
Cover all three data structures consistently
ee8a5ef
The first pass only named AnnData, in a blurb that heads all three cards.
mudata and spatialdata gained interoperability pages of their own this month (scverse/mudata#189, scverse/spatialdata#1180), so each card now carries an Interoperability link and the section blurb no longer singles one format out.
The mudata card loses its Muon.jl chip: with a sibling Interoperability link that lists Muon.jl alongside the R options, a Julia-only chip reads as arbitrary.
Signed-off-by: Lukas Heumos <lukas.heumos@posteo.net>
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docs: add interoperability page by jan-glx · Pull Request #1180 · scverse/spatialdata · GitHub
Skip to content
docs: add interoperability page - #1180
Merged
LucaMarconato merged 2 commits into
scverse:mainfrom 
jan-glx:docs/interoperability
Aug 19, 2026
Merged
docs: add interoperability page#1180
LucaMarconato merged 2 commits into
scverse:mainfrom 
jan-glx:docs/interoperability
Conversation
@jan-glx
@jan-glxjan-glx
commented
Aug 18, 2026•

edited

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Closes#1176. Preview: https://scverse-spatialdata--1180.org.readthedocs.build/en/1180/interoperability.html
Adds a short Interoperability page listing the non-Python interfaces to the SpatialData on-disk format, following the structure of the equivalent page in mudata and the one in anndata, as requested by @Zethson so the style is consistent across the three data structures.
Sections: R (spatialdataR), JavaScript and TypeScript (SpatialData.js, Vitessce), and a short File format note (to be expanded into its osn tab later).
napari-spatialdata is not listed as it's python, relies on the spatialdata python package and does not read on-disk data directly
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Codecov Report
✅ All modified and coverable lines are covered by tests.

✅ Project coverage is 92.41%. Comparing base (21abd1e) to head (8b9ba34).
⚠️ Report is 1 commits behind head on main.
Additional details and impacted files
@@ Coverage Diff @@## main #1180 +/- ##
=======================================
Coverage 92.41% 92.41% =======================================
Files 52 52 Lines 7874 7874 =======================================
Hits 7277 7277 Misses 597 597 
Files with missing linesCoverage Δ
src/spatialdata/_io/io_zarr.py92.38% <100.00%> (ø)
 🚀 New features to boost your workflow: 
  • ❄️ Test Analytics: Detect flaky tests, report on failures, and find test suite problems.
@jan-glx
jan-glx
marked this pull request as draft
August 18, 2026 16:05
@jan-glx
jan-glx
commented
Aug 18, 2026

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CollaboratorAuthor
Updated: the file-format section now links scverse/spatialdata-spec directly, as originally suggested, alongside the pointer to design_doc.md.
Flagging for visibility: that repository is still private, so the link will 404 for anyone outside the org until it is made public. The design-document link next to it keeps the section useful in the meantime.
@jan-glx
docs: add interoperability page
9c26df3
Closesscverse#1176.
Adds a short Interoperability page listing non-Python interfaces to the
SpatialData on-disk format, mirroring the equivalent pages in anndata and
mudata so the style is consistent across the three data structures.
Also notes that the format builds on OME-NGFF and points at the design
document for the current on-disk layout.
@jan-glx
jan-glxforce-pushed
the
docs/interoperability
branch
from
aa81aa9 to
9c26df3CompareAugust 18, 2026 16:43
@jan-glx
jan-glx
marked this pull request as ready for review
August 18, 2026 16:46
LucaMarconato
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LGTM, thanks!
@LucaMarconato
LucaMarconato
enabled auto-merge (squash)
August 19, 2026 09:33
@LucaMarconato
LucaMarconato
merged commit 4d1020f
into
scverse:mainAug 19, 2026

10 checks passed

@LucaMarconatoLucaMarconato
mentioned this pull request
Aug 19, 2026
 Merged

Zethson added a commit
to scverse/scverse.github.io
that referenced
this pull request
Aug 23, 2026
@Zethson@claude
Cover all three data structures consistently
7a44774
The first pass only named AnnData, in a blurb that heads all three cards.
mudata and spatialdata gained interoperability pages of their own this month (scverse/mudata#189, scverse/spatialdata#1180), so each card now carries an Interoperability link and the section blurb no longer singles one format out.
The mudata card loses its Muon.jl chip: with a sibling Interoperability link that lists Muon.jl alongside the R options, a Julia-only chip reads as arbitrary.
Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Signed-off-by: Lukas Heumos <lukas.heumos@posteo.net>
@ZethsonZethson
mentioned this pull request
Aug 23, 2026
 Open

Zethson added a commit
to scverse/scverse.github.io
that referenced
this pull request
Aug 23, 2026
@Zethson
Cover all three data structures consistently
ee8a5ef
The first pass only named AnnData, in a blurb that heads all three cards.
mudata and spatialdata gained interoperability pages of their own this month (scverse/mudata#189, scverse/spatialdata#1180), so each card now carries an Interoperability link and the section blurb no longer singles one format out.
The mudata card loses its Muon.jl chip: with a sibling Interoperability link that lists Muon.jl alongside the R options, a Julia-only chip reads as arbitrary.
Signed-off-by: Lukas Heumos <lukas.heumos@posteo.net>
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Add interoperability documentation page


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docs: add interoperability page by jan-glx · Pull Request #1180 · scverse/spatialdata · GitHub
Skip to content
docs: add interoperability page - #1180
Merged
LucaMarconato merged 2 commits into
scverse:mainfrom 
jan-glx:docs/interoperability
Aug 19, 2026
Merged
docs: add interoperability page#1180
LucaMarconato merged 2 commits into
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Closes#1176. Preview: https://scverse-spatialdata--1180.org.readthedocs.build/en/1180/interoperability.html
Adds a short Interoperability page listing the non-Python interfaces to the SpatialData on-disk format, following the structure of the equivalent page in mudata and the one in anndata, as requested by @Zethson so the style is consistent across the three data structures.
Sections: R (spatialdataR), JavaScript and TypeScript (SpatialData.js, Vitessce), and a short File format note (to be expanded into its osn tab later).
napari-spatialdata is not listed as it's python, relies on the spatialdata python package and does not read on-disk data directly
@codecov
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Codecov Report
✅ All modified and coverable lines are covered by tests.

✅ Project coverage is 92.41%. Comparing base (21abd1e) to head (8b9ba34).
⚠️ Report is 1 commits behind head on main.
Additional details and impacted files
@@ Coverage Diff @@## main #1180 +/- ##
=======================================
Coverage 92.41% 92.41% =======================================
Files 52 52 Lines 7874 7874 =======================================
Hits 7277 7277 Misses 597 597 
Files with missing linesCoverage Δ
src/spatialdata/_io/io_zarr.py92.38% <100.00%> (ø)
 🚀 New features to boost your workflow: 
  • ❄️ Test Analytics: Detect flaky tests, report on failures, and find test suite problems.
@jan-glx
jan-glx
marked this pull request as draft
August 18, 2026 16:05
@jan-glx
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commented
Aug 18, 2026

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CollaboratorAuthor
Updated: the file-format section now links scverse/spatialdata-spec directly, as originally suggested, alongside the pointer to design_doc.md.
Flagging for visibility: that repository is still private, so the link will 404 for anyone outside the org until it is made public. The design-document link next to it keeps the section useful in the meantime.
@jan-glx
docs: add interoperability page
9c26df3
Closesscverse#1176.
Adds a short Interoperability page listing non-Python interfaces to the
SpatialData on-disk format, mirroring the equivalent pages in anndata and
mudata so the style is consistent across the three data structures.
Also notes that the format builds on OME-NGFF and points at the design
document for the current on-disk layout.
@jan-glx
jan-glxforce-pushed
the
docs/interoperability
branch
from
aa81aa9 to
9c26df3CompareAugust 18, 2026 16:43
@jan-glx
jan-glx
marked this pull request as ready for review
August 18, 2026 16:46
LucaMarconato
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approved these changes
Aug 19, 2026
View reviewed changes
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LGTM, thanks!
@LucaMarconato
LucaMarconato
enabled auto-merge (squash)
August 19, 2026 09:33
@LucaMarconato
LucaMarconato
merged commit 4d1020f
into
scverse:mainAug 19, 2026

10 checks passed

@LucaMarconatoLucaMarconato
mentioned this pull request
Aug 19, 2026
 Merged

Zethson added a commit
to scverse/scverse.github.io
that referenced
this pull request
Aug 23, 2026
@Zethson@claude
Cover all three data structures consistently
7a44774
The first pass only named AnnData, in a blurb that heads all three cards.
mudata and spatialdata gained interoperability pages of their own this month (scverse/mudata#189, scverse/spatialdata#1180), so each card now carries an Interoperability link and the section blurb no longer singles one format out.
The mudata card loses its Muon.jl chip: with a sibling Interoperability link that lists Muon.jl alongside the R options, a Julia-only chip reads as arbitrary.
Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Signed-off-by: Lukas Heumos <lukas.heumos@posteo.net>
@ZethsonZethson
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@Zethson
Cover all three data structures consistently
ee8a5ef
The first pass only named AnnData, in a blurb that heads all three cards.
mudata and spatialdata gained interoperability pages of their own this month (scverse/mudata#189, scverse/spatialdata#1180), so each card now carries an Interoperability link and the section blurb no longer singles one format out.
The mudata card loses its Muon.jl chip: with a sibling Interoperability link that lists Muon.jl alongside the R options, a Julia-only chip reads as arbitrary.
Signed-off-by: Lukas Heumos <lukas.heumos@posteo.net>
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var __m = "youtube.com";
var __re = new RegExp('^' + "youtube\\.com" + '
docs: add interoperability page by jan-glx · Pull Request #1180 · scverse/spatialdata · GitHub
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Closes#1176. Preview: https://scverse-spatialdata--1180.org.readthedocs.build/en/1180/interoperability.html
Adds a short Interoperability page listing the non-Python interfaces to the SpatialData on-disk format, following the structure of the equivalent page in mudata and the one in anndata, as requested by @Zethson so the style is consistent across the three data structures.
Sections: R (spatialdataR), JavaScript and TypeScript (SpatialData.js, Vitessce), and a short File format note (to be expanded into its osn tab later).
napari-spatialdata is not listed as it's python, relies on the spatialdata python package and does not read on-disk data directly
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Codecov Report
✅ All modified and coverable lines are covered by tests.

✅ Project coverage is 92.41%. Comparing base (21abd1e) to head (8b9ba34).
⚠️ Report is 1 commits behind head on main.
Additional details and impacted files
@@ Coverage Diff @@## main #1180 +/- ##
=======================================
Coverage 92.41% 92.41% =======================================
Files 52 52 Lines 7874 7874 =======================================
Hits 7277 7277 Misses 597 597 
Files with missing linesCoverage Δ
src/spatialdata/_io/io_zarr.py92.38% <100.00%> (ø)
 🚀 New features to boost your workflow: 
  • ❄️ Test Analytics: Detect flaky tests, report on failures, and find test suite problems.
@jan-glx
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Updated: the file-format section now links scverse/spatialdata-spec directly, as originally suggested, alongside the pointer to design_doc.md.
Flagging for visibility: that repository is still private, so the link will 404 for anyone outside the org until it is made public. The design-document link next to it keeps the section useful in the meantime.
@jan-glx
docs: add interoperability page
9c26df3
Closesscverse#1176.
Adds a short Interoperability page listing non-Python interfaces to the
SpatialData on-disk format, mirroring the equivalent pages in anndata and
mudata so the style is consistent across the three data structures.
Also notes that the format builds on OME-NGFF and points at the design
document for the current on-disk layout.
@jan-glx
jan-glxforce-pushed
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LGTM, thanks!
@LucaMarconato
LucaMarconato
enabled auto-merge (squash)
August 19, 2026 09:33
@LucaMarconato
LucaMarconato
merged commit 4d1020f
into
scverse:mainAug 19, 2026

10 checks passed

@LucaMarconatoLucaMarconato
mentioned this pull request
Aug 19, 2026
 Merged

Zethson added a commit
to scverse/scverse.github.io
that referenced
this pull request
Aug 23, 2026
@Zethson@claude
Cover all three data structures consistently
7a44774
The first pass only named AnnData, in a blurb that heads all three cards.
mudata and spatialdata gained interoperability pages of their own this month (scverse/mudata#189, scverse/spatialdata#1180), so each card now carries an Interoperability link and the section blurb no longer singles one format out.
The mudata card loses its Muon.jl chip: with a sibling Interoperability link that lists Muon.jl alongside the R options, a Julia-only chip reads as arbitrary.
Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Signed-off-by: Lukas Heumos <lukas.heumos@posteo.net>
@ZethsonZethson
mentioned this pull request
Aug 23, 2026
 Open

Zethson added a commit
to scverse/scverse.github.io
that referenced
this pull request
Aug 23, 2026
@Zethson
Cover all three data structures consistently
ee8a5ef
The first pass only named AnnData, in a blurb that heads all three cards.
mudata and spatialdata gained interoperability pages of their own this month (scverse/mudata#189, scverse/spatialdata#1180), so each card now carries an Interoperability link and the section blurb no longer singles one format out.
The mudata card loses its Muon.jl chip: with a sibling Interoperability link that lists Muon.jl alongside the R options, a Julia-only chip reads as arbitrary.
Signed-off-by: Lukas Heumos <lukas.heumos@posteo.net>
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, 'i');
if (__m === '*' || __re.test(location.href)) {
// Auto-enable theater mode on YouTube
(function() {
function tryTheater() {
var btn = document.querySelector('button[aria-label="Theater mode"], ytd-player #player button[title="Theater mode"]');
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(function(){
try {
var __m = "*";
var __re = new RegExp('^' + ".*" + '
docs: add interoperability page by jan-glx · Pull Request #1180 · scverse/spatialdata · GitHub
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docs: add interoperability page - #1180
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Closes#1176. Preview: https://scverse-spatialdata--1180.org.readthedocs.build/en/1180/interoperability.html
Adds a short Interoperability page listing the non-Python interfaces to the SpatialData on-disk format, following the structure of the equivalent page in mudata and the one in anndata, as requested by @Zethson so the style is consistent across the three data structures.
Sections: R (spatialdataR), JavaScript and TypeScript (SpatialData.js, Vitessce), and a short File format note (to be expanded into its osn tab later).
napari-spatialdata is not listed as it's python, relies on the spatialdata python package and does not read on-disk data directly
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Codecov Report
✅ All modified and coverable lines are covered by tests.

✅ Project coverage is 92.41%. Comparing base (21abd1e) to head (8b9ba34).
⚠️ Report is 1 commits behind head on main.
Additional details and impacted files
@@ Coverage Diff @@## main #1180 +/- ##
=======================================
Coverage 92.41% 92.41% =======================================
Files 52 52 Lines 7874 7874 =======================================
Hits 7277 7277 Misses 597 597 
Files with missing linesCoverage Δ
src/spatialdata/_io/io_zarr.py92.38% <100.00%> (ø)
 🚀 New features to boost your workflow: 
  • ❄️ Test Analytics: Detect flaky tests, report on failures, and find test suite problems.
@jan-glx
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marked this pull request as draft
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CollaboratorAuthor
Updated: the file-format section now links scverse/spatialdata-spec directly, as originally suggested, alongside the pointer to design_doc.md.
Flagging for visibility: that repository is still private, so the link will 404 for anyone outside the org until it is made public. The design-document link next to it keeps the section useful in the meantime.
@jan-glx
docs: add interoperability page
9c26df3
Closesscverse#1176.
Adds a short Interoperability page listing non-Python interfaces to the
SpatialData on-disk format, mirroring the equivalent pages in anndata and
mudata so the style is consistent across the three data structures.
Also notes that the format builds on OME-NGFF and points at the design
document for the current on-disk layout.
@jan-glx
jan-glxforce-pushed
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docs/interoperability
branch
from
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9c26df3CompareAugust 18, 2026 16:43
@jan-glx
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marked this pull request as ready for review
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LGTM, thanks!
@LucaMarconato
LucaMarconato
enabled auto-merge (squash)
August 19, 2026 09:33
@LucaMarconato
LucaMarconato
merged commit 4d1020f
into
scverse:mainAug 19, 2026

10 checks passed

@LucaMarconatoLucaMarconato
mentioned this pull request
Aug 19, 2026
 Merged

Zethson added a commit
to scverse/scverse.github.io
that referenced
this pull request
Aug 23, 2026
@Zethson@claude
Cover all three data structures consistently
7a44774
The first pass only named AnnData, in a blurb that heads all three cards.
mudata and spatialdata gained interoperability pages of their own this month (scverse/mudata#189, scverse/spatialdata#1180), so each card now carries an Interoperability link and the section blurb no longer singles one format out.
The mudata card loses its Muon.jl chip: with a sibling Interoperability link that lists Muon.jl alongside the R options, a Julia-only chip reads as arbitrary.
Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Signed-off-by: Lukas Heumos <lukas.heumos@posteo.net>
@ZethsonZethson
mentioned this pull request
Aug 23, 2026
 Open

Zethson added a commit
to scverse/scverse.github.io
that referenced
this pull request
Aug 23, 2026
@Zethson
Cover all three data structures consistently
ee8a5ef
The first pass only named AnnData, in a blurb that heads all three cards.
mudata and spatialdata gained interoperability pages of their own this month (scverse/mudata#189, scverse/spatialdata#1180), so each card now carries an Interoperability link and the section blurb no longer singles one format out.
The mudata card loses its Muon.jl chip: with a sibling Interoperability link that lists Muon.jl alongside the R options, a Julia-only chip reads as arbitrary.
Signed-off-by: Lukas Heumos <lukas.heumos@posteo.net>
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Add interoperability documentation page


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@jan-glx@LucaMarconato

, 'i');
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(function(){
try {
var __m = "*";
var __re = new RegExp('^' + ".*" + '
docs: add interoperability page by jan-glx · Pull Request #1180 · scverse/spatialdata · GitHub
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docs: add interoperability page - #1180
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LucaMarconato merged 2 commits into
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Closes#1176. Preview: https://scverse-spatialdata--1180.org.readthedocs.build/en/1180/interoperability.html
Adds a short Interoperability page listing the non-Python interfaces to the SpatialData on-disk format, following the structure of the equivalent page in mudata and the one in anndata, as requested by @Zethson so the style is consistent across the three data structures.
Sections: R (spatialdataR), JavaScript and TypeScript (SpatialData.js, Vitessce), and a short File format note (to be expanded into its osn tab later).
napari-spatialdata is not listed as it's python, relies on the spatialdata python package and does not read on-disk data directly
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Codecov Report
✅ All modified and coverable lines are covered by tests.

✅ Project coverage is 92.41%. Comparing base (21abd1e) to head (8b9ba34).
⚠️ Report is 1 commits behind head on main.
Additional details and impacted files
@@ Coverage Diff @@## main #1180 +/- ##
=======================================
Coverage 92.41% 92.41% =======================================
Files 52 52 Lines 7874 7874 =======================================
Hits 7277 7277 Misses 597 597 
Files with missing linesCoverage Δ
src/spatialdata/_io/io_zarr.py92.38% <100.00%> (ø)
 🚀 New features to boost your workflow: 
  • ❄️ Test Analytics: Detect flaky tests, report on failures, and find test suite problems.
@jan-glx
jan-glx
marked this pull request as draft
August 18, 2026 16:05
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Updated: the file-format section now links scverse/spatialdata-spec directly, as originally suggested, alongside the pointer to design_doc.md.
Flagging for visibility: that repository is still private, so the link will 404 for anyone outside the org until it is made public. The design-document link next to it keeps the section useful in the meantime.
@jan-glx
docs: add interoperability page
9c26df3
Closesscverse#1176.
Adds a short Interoperability page listing non-Python interfaces to the
SpatialData on-disk format, mirroring the equivalent pages in anndata and
mudata so the style is consistent across the three data structures.
Also notes that the format builds on OME-NGFF and points at the design
document for the current on-disk layout.
@jan-glx
jan-glxforce-pushed
the
docs/interoperability
branch
from
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9c26df3CompareAugust 18, 2026 16:43
@jan-glx
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marked this pull request as ready for review
August 18, 2026 16:46
LucaMarconato
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LGTM, thanks!
@LucaMarconato
LucaMarconato
enabled auto-merge (squash)
August 19, 2026 09:33
@LucaMarconato
LucaMarconato
merged commit 4d1020f
into
scverse:mainAug 19, 2026

10 checks passed

@LucaMarconatoLucaMarconato
mentioned this pull request
Aug 19, 2026
 Merged

Zethson added a commit
to scverse/scverse.github.io
that referenced
this pull request
Aug 23, 2026
@Zethson@claude
Cover all three data structures consistently
7a44774
The first pass only named AnnData, in a blurb that heads all three cards.
mudata and spatialdata gained interoperability pages of their own this month (scverse/mudata#189, scverse/spatialdata#1180), so each card now carries an Interoperability link and the section blurb no longer singles one format out.
The mudata card loses its Muon.jl chip: with a sibling Interoperability link that lists Muon.jl alongside the R options, a Julia-only chip reads as arbitrary.
Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Signed-off-by: Lukas Heumos <lukas.heumos@posteo.net>
@ZethsonZethson
mentioned this pull request
Aug 23, 2026
 Open

Zethson added a commit
to scverse/scverse.github.io
that referenced
this pull request
Aug 23, 2026
@Zethson
Cover all three data structures consistently
ee8a5ef
The first pass only named AnnData, in a blurb that heads all three cards.
mudata and spatialdata gained interoperability pages of their own this month (scverse/mudata#189, scverse/spatialdata#1180), so each card now carries an Interoperability link and the section blurb no longer singles one format out.
The mudata card loses its Muon.jl chip: with a sibling Interoperability link that lists Muon.jl alongside the R options, a Julia-only chip reads as arbitrary.
Signed-off-by: Lukas Heumos <lukas.heumos@posteo.net>
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Add interoperability documentation page


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@jan-glx@LucaMarconato

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})();
})();
docs: add interoperability page by jan-glx · Pull Request #1180 · scverse/spatialdata · GitHub
Skip to content
docs: add interoperability page - #1180
Merged
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Merged
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Closes#1176. Preview: https://scverse-spatialdata--1180.org.readthedocs.build/en/1180/interoperability.html
Adds a short Interoperability page listing the non-Python interfaces to the SpatialData on-disk format, following the structure of the equivalent page in mudata and the one in anndata, as requested by @Zethson so the style is consistent across the three data structures.
Sections: R (spatialdataR), JavaScript and TypeScript (SpatialData.js, Vitessce), and a short File format note (to be expanded into its osn tab later).
napari-spatialdata is not listed as it's python, relies on the spatialdata python package and does not read on-disk data directly
@codecov
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Codecov Report
✅ All modified and coverable lines are covered by tests.

✅ Project coverage is 92.41%. Comparing base (21abd1e) to head (8b9ba34).
⚠️ Report is 1 commits behind head on main.
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@@ Coverage Diff @@## main #1180 +/- ##
=======================================
Coverage 92.41% 92.41% =======================================
Files 52 52 Lines 7874 7874 =======================================
Hits 7277 7277 Misses 597 597 
Files with missing linesCoverage Δ
src/spatialdata/_io/io_zarr.py92.38% <100.00%> (ø)
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@jan-glx
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marked this pull request as draft
August 18, 2026 16:05
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Aug 18, 2026

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Updated: the file-format section now links scverse/spatialdata-spec directly, as originally suggested, alongside the pointer to design_doc.md.
Flagging for visibility: that repository is still private, so the link will 404 for anyone outside the org until it is made public. The design-document link next to it keeps the section useful in the meantime.
@jan-glx
docs: add interoperability page
9c26df3
Closesscverse#1176.
Adds a short Interoperability page listing non-Python interfaces to the
SpatialData on-disk format, mirroring the equivalent pages in anndata and
mudata so the style is consistent across the three data structures.
Also notes that the format builds on OME-NGFF and points at the design
document for the current on-disk layout.
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@jan-glx
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marked this pull request as ready for review
August 18, 2026 16:46
LucaMarconato
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Aug 19, 2026
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LGTM, thanks!
@LucaMarconato
LucaMarconato
enabled auto-merge (squash)
August 19, 2026 09:33
@LucaMarconato
LucaMarconato
merged commit 4d1020f
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scverse:mainAug 19, 2026

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@LucaMarconatoLucaMarconato
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Aug 19, 2026
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Zethson added a commit
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Aug 23, 2026
@Zethson@claude
Cover all three data structures consistently
7a44774
The first pass only named AnnData, in a blurb that heads all three cards.
mudata and spatialdata gained interoperability pages of their own this month (scverse/mudata#189, scverse/spatialdata#1180), so each card now carries an Interoperability link and the section blurb no longer singles one format out.
The mudata card loses its Muon.jl chip: with a sibling Interoperability link that lists Muon.jl alongside the R options, a Julia-only chip reads as arbitrary.
Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Signed-off-by: Lukas Heumos <lukas.heumos@posteo.net>
@ZethsonZethson
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Aug 23, 2026
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Zethson added a commit
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Aug 23, 2026
@Zethson
Cover all three data structures consistently
ee8a5ef
The first pass only named AnnData, in a blurb that heads all three cards.
mudata and spatialdata gained interoperability pages of their own this month (scverse/mudata#189, scverse/spatialdata#1180), so each card now carries an Interoperability link and the section blurb no longer singles one format out.
The mudata card loses its Muon.jl chip: with a sibling Interoperability link that lists Muon.jl alongside the R options, a Julia-only chip reads as arbitrary.
Signed-off-by: Lukas Heumos <lukas.heumos@posteo.net>
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Add interoperability documentation page


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