Skip to content

Tags: BiocPy/SpatialExperiment

Tags

0.1.0

Toggle 0.1.0's commit message

Verified

This commit was created on GitHub.com and signed with GitHub’s verified signature.
Changes to adapt to SCE (#59)

0.0.13

Toggle 0.0.13's commit message

Verified

This commit was created on GitHub.com and signed with GitHub’s verified signature.
Add details to `to_anndata()` docstring (#55)

0.0.12

Toggle 0.0.12's commit message

Verified

This commit was created on GitHub.com and signed with GitHub’s verified signature.
Make check for empty bframe more robust (#54)

0.0.11

Toggle 0.0.11's commit message

Verified

This commit was created on GitHub.com and signed with GitHub’s verified signature.
Only populate obsm if spatial coordinates exist (#53)

0.0.10

Toggle 0.0.10's commit message

Verified

This commit was created on GitHub.com and signed with GitHub’s verified signature.
Change to image handling for consistency (#51)

- Add an affine function that computes a `rasterio.Affine` object given a `scale_factor`. This assumes a simple scaling where the origin is (0,0) in the spatial coordinate system corresponding to the top-left pixel (0,0). More complex alignments would require explicit affine transforms.
- Ensure `img_raster()` consistently returns a PIL.Image.Image.
- Add `to_numpy()` method.
- Changes to how caching works in remote images.

0.0.9

Toggle 0.0.9's commit message

Verified

This commit was created on GitHub.com and signed with GitHub’s verified signature.
Implement to_anndata() (#50)

0.0.8

Toggle 0.0.8's commit message

Verified

This commit was created on GitHub.com and signed with GitHub’s verified signature.
Set the expected column names for image data slot (#46)

0.0.7

Toggle 0.0.7's commit message

Verified

This commit was created on GitHub.com and signed with GitHub’s verified signature.
Implement img_source() (#36)

0.0.6

Toggle 0.0.6's commit message

Verified

This commit was created on GitHub.com and signed with GitHub’s verified signature.
Load visium as SPE (#16)

* WIP: Implement read_10x_visium

* WIP: Wait for combine ops on SpatialExperiment objs to be implemented

* read_tenx_visium executes successfully

* Initial test for read_tenx_visium passing

* Restrict scipy version to be compatible with python>=3.9

* WIP: Working on last test case for read_tenx_visium

* Fix test_tissue_positions_files test case

* Update CHANGELOG

* Handle paths and urls more reliably

* Localize dependencies

0.0.5

Toggle 0.0.5's commit message

Verified

This commit was created on GitHub.com and signed with GitHub’s verified signature.
Implement the SFE class (placeholder until there's an official versio…

…n) (#21)