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mayofaulknermayofaulkner
change log and version number
Mar 25, 2025
14ad0d6 · Mar 25, 2025

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CHANGELOG.md

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[0.7.0]

Added

  • iblatlas.atlas.xyz_to_depth a lookup from xyz coord to depth in cortex

Modified

  • Moved iblatlas.plots.get_bc10 to iblatlas.atlas.get_bc

[0.6.0]

Added

  • iblatlas.genomics.agea option to load pre-processed volume
  • iblatlas.gui.atlasview QT-based GUI to explore the Allen Atlas

[0.5.7]

Modified

  • iblatlas.plots.plot_scalar_on_slice option to add mask with specific color when using vector=True

[0.5.6]

Bugfix

  • Cast list to numpy array for compatibility with numpy 2.0

[0.5.5]

Modified

  • removed instances of np.NaN to replace with np.nan for numpy 2.0 compatibility
  • set python 3.10 as minimum python version

[0.5.4]

Modified

  • iblatlas.plots.plot_swanson_vector option to show colorbar

[0.5.3]

Modified

  • iblatlas.plots uses matplotlib.colormaps.get_cmap instead of deprecated cm.get_cmap

[0.5.2]

Modified

  • iblatlas.plots uses colors.get_cmap instead of deprecated colors.get_cmap

[0.5.1]

Modified

  • iblatlas.genomics.merfish.load does not return an error when dask is installed but dask.dataframe is not.

[0.5.0]

Added

  • iblatlas.genomics.merfish module for working with the Allen gene expression atlas in the iblatlas.genomics.merfish module

[0.4.0]

Added

  • iblatlas.genomics.agea module for working with the Allen gene expression atlas in the iblatlas.genomics.agea module

Modified

  • slices of the atlas are now always returned with consistent sizes regardless of the volume layout on disk
  • atlases now can have an extra dimension in the image volume, to allow for multiple layers

[0.3.0]

Modified

  • Insertion._get_surface_intersection: can return None if and when mode is not set to raise and insertion is not intersecting with any surface
  • BrainAtlas.mask(): method that computes a mask of the convex brain volume shape

[0.2.1]

Modified

  • HOTFIX: Pass reg id into polygon functions in plot_scalar_on_slice

[0.2.0]

Modified

  • Changed packaging from setup.py to pyproject.toml

[0.1.1]

Modified

  • Change examples and docstrings to reference iblatlas instead of ibllib

[0.1.0]

Added

  • Atlas files that were located in the ibllib github repository. These include all files in the ibllib.atlas module, in examples.atlas and ibllib.tests.test_atlas.py