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GitHub / biocpy/spatialexperiment issues and pull requests

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

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

#55 - Add details to `to_anndata()` docstring

Pull Request - State: closed - Opened by keviny2 3 months ago - 1 comment

#54 - Make check for empty bframe more robust

Pull Request - State: closed - Opened by keviny2 3 months ago - 1 comment

#53 - Only populate obsm if spatial coordinates exist

Pull Request - State: closed - Opened by keviny2 3 months ago - 1 comment

#51 - changes to image handling, especially around cache and equality

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

#50 - Implement to_anndata()

Pull Request - State: closed - Opened by keviny2 3 months ago

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

Pull Request - State: closed - Opened by pre-commit-ci[bot] 3 months ago - 1 comment

#48 - Make module names all lowercase

Pull Request - State: closed - Opened by keviny2 3 months ago

#47 - spelling out methods names

Issue - State: open - Opened by jkanche 3 months ago
Labels: enhancement

#46 - Set the expected column names for image data slot

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

#45 - Default value for `img_data` should contain expected column names

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

#44 - implement `to_anndata()`

Issue - State: open - Opened by keviny2 3 months ago

#43 - Implement `rotate_img()` in SpatialExperiment class

Issue - State: open - Opened by keviny2 4 months ago - 2 comments

#42 - `as_path` parameter in `img_source`

Issue - State: closed - Opened by keviny2 4 months ago

#41 - Implement `img_raster` in `SpatialExperiment` class

Pull Request - State: closed - Opened by keviny2 4 months ago

#40 - Implement `img_raster` in SpatialExperiment class

Issue - State: closed - Opened by keviny2 4 months ago

#39 - getters and setters for SpatialImage properties

Issue - State: open - Opened by keviny2 4 months ago

#38 - Enhance tests for image data methods

Pull Request - State: closed - Opened by keviny2 4 months ago

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

Pull Request - State: closed - Opened by pre-commit-ci[bot] 4 months ago

#36 - Implement img_source()

Pull Request - State: closed - Opened by keviny2 4 months ago - 1 comment

#35 - Implement `img_source()`

Issue - State: closed - Opened by keviny2 4 months ago

#34 - Remove image(s) from SPE

Pull Request - State: closed - Opened by keviny2 4 months ago

#33 - Refactor retrieve_rows_by_id to get_img_idx

Pull Request - State: closed - Opened by keviny2 4 months ago - 1 comment

#32 - remove image(s) from SPE

Issue - State: closed - Opened by keviny2 4 months ago

#30 - Move SFE into its own package

Pull Request - State: closed - Opened by jkanche 5 months ago

#29 - tidy up printing spatial coords

Issue - State: open - Opened by keviny2 5 months ago

#28 - combine row ops

Issue - State: open - Opened by keviny2 5 months ago

#27 - Override __eq__ in spi classes

Pull Request - State: closed - Opened by keviny2 5 months ago - 2 comments

#26 - override __eq__ for SpatialImage

Issue - State: closed - Opened by keviny2 5 months ago

#25 - enable updates to `sample_id`

Issue - State: open - Opened by keviny2 5 months ago - 1 comment

#24 - do validation if sample_id column is modified directly

Issue - State: closed - Opened by keviny2 5 months ago

#23 - combine column ops

Pull Request - State: closed - Opened by keviny2 5 months ago - 1 comment

#22 - combine columns ops

Issue - State: closed - Opened by keviny2 5 months ago

#21 - initial version of SFE

Pull Request - State: closed - Opened by jkanche 6 months ago

#20 - SPE-rotate-mirror (methods for spatial attributes)

Issue - State: open - Opened by keviny2 6 months ago

#19 - imgData methods

Issue - State: open - Opened by keviny2 6 months ago

#18 - Construct SPE from SpatialData

Pull Request - State: open - Opened by keviny2 6 months ago

#17 - interop w/ SpatialData

Issue - State: open - Opened by keviny2 6 months ago

#16 - Load visium as SPE

Pull Request - State: closed - Opened by keviny2 6 months ago - 1 comment

#15 - Minor enhancements

Pull Request - State: closed - Opened by jkanche 6 months ago

#14 - Implementing equivalent `SpatialImage` classes

Pull Request - State: closed - Opened by jkanche 6 months ago

#13 - Allow spatial coordinates to be a numpy array

Pull Request - State: closed - Opened by keviny2 6 months ago - 2 comments

#12 - allow `spatial_coords` to be a ndarray

Issue - State: closed - Opened by keviny2 6 months ago

#11 - Implement methods for handling image-related data

Issue - State: closed - Opened by keviny2 6 months ago

#10 - Also add docstring for this class

Issue - State: closed - Opened by jkanche 6 months ago

#9 - caching for SpatialImage

Issue - State: closed - Opened by keviny2 6 months ago

#8 - function to rename samples

Issue - State: open - Opened by keviny2 6 months ago

#7 - Load visium (& may be others) as SPE objects

Issue - State: closed - Opened by jkanche 6 months ago

#6 - Coercions to/from scverse representations

Issue - State: open - Opened by jkanche 6 months ago

#5 - slicing (`__getitem__`) should slice the new slots available in the class

Issue - State: closed - Opened by jkanche 6 months ago - 1 comment

#4 - Prop for storing spatial coordinates

Issue - State: closed - Opened by jkanche 6 months ago - 1 comment

#3 - Support image data containers

Issue - State: closed - Opened by jkanche 6 months ago - 1 comment

#2 - `SpatialExperiment` class

Issue - State: closed - Opened by jkanche 6 months ago

#1 - Init spatial experiment

Pull Request - State: closed - Opened by keviny2 6 months ago - 4 comments