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PyPI · #3590 most downloaded on PyPI
Annotated data.
Last release 22 days ago
27 Aug 2026
Release timing varies
gaps range from 9 days to 2 months
Most releases are documented
notes for 48 of the last 60 stable releases
1 version withdrawn
withdrawn after publishing
9 years old
124 releases · first in 2017
- Added ipython tab completion and a useful return from .keys to adata.uns #415 I Virshup
Added ipython tab completion and a useful return from .keys to adata.uns #415 I Virshup
Compatibility with h5py>=3 strings #444 I Virshup
Allow adata.raw = None , as is documented #447 I Virshup
Fix warnings from pandas 1.1 #425 I Virshup
(v0.7.5)=
12 November, 2020.keys to adata.uns {pr}415 {smaller}I Virshuph5py>=3 strings {pr}444 {smaller}I Virshupadata.raw = None, as is documented {pr}447 {smaller}I Virshup425 {smaller}I VirshupOne column per quarter.
- New function anndata.concat() for concatenating AnnData objects along either observations or variables
New function anndata.concat() for concatenating AnnData objects along either observations or variables
New documentation section: Concatenation
AnnData object created from dataframes with sparse values will have sparse .X #395 I Virshup
Fixed error from AnnData.concatenate by bumping minimum versions of numpy and pandas #385
Fixed colors being incorrectly changed when AnnData object was subset #388
(v0.7.4)=
10 July, 2020378 {smaller}I Virshupanndata.concat for concatenating AnnData objects along either observations or variables/tutorials/concatenation.X {pr}395 {smaller}I VirshupAnnData.concatenate by bumping minimum versions of numpy and pandas {issue}385AnnData object was subset {pr}388- Fixed bug where graphs used too much memory when copying #381 I Virshup
Fixed bug where graphs used too much memory when copying #381 I Virshup
(v0.7.3)=
20 May, 2020381 {smaller}I Virshup- obsp is now preferred for storing pairwise relationships between observations. In practice, this means there will be deprecation warnings and reform…
Elements of uns can now be merged, see #350
Outer joins now work for layers and obsm , see #352
Fill value for outer joins can now be specified
Expect improvements in performance, see #303
obsp and varp can now be transposed #370 A Wolf
obs_names_make_unique() is now better at making values unique, and will warn if ambiguities arise #345 M Weiden
obsp is now preferred for storing pairwise relationships between observations. In practice, this means there will be deprecation warnings and reformatting applied to objects which stored connectivities under uns["neighbors"] . Square matrices in uns will no longer be sliced (use .{obs,var}p instead). #337 I Virshup
ImplicitModificationWarning is now exported #315 P Angerer
Better support for ndarray subclasses stored in AnnData objects #335 michalk8
Fixed inplace modification of Index objects by the make unique function #348 I Virshup
Passing ambiguous keys to AnnData.obs_vector and AnnData.var_vector now throws errors #340 I Virshup
Fix instantiating AnnData objects from DataFrame #316 P Angerer
Fixed indexing into AnnData objects with arrays like adata[adata[:, gene].X > 0] #332 I Virshup
Fixed type of version #315 P Angerer
Fixed deprecated import from pandas #319 P Angerer
(v0.7.2)=
15 May, 2020I Virshupuns can now be merged, see {pr}350layers and obsm, see {pr}352303~anndata.AnnData.obsp and {attr}~anndata.AnnData.varp can now be transposed {pr}370 {smaller}A Wolf~anndata.AnnData.obs_names_make_unique is now better at making values unique, and will warn if ambiguities arise {pr}345 {smaller}M Weiden~anndata.AnnData.obsp is now preferred for storing pairwise relationships between observations. In practice, this means there will be deprecation warnings and reformatting applied to objects which stored connectivities under uns["neighbors"]. Square matrices in {attr}~anndata.AnnData.uns will no longer be sliced (use .{obs,var}p instead). {pr}337 {smaller}I Virshup~anndata.ImplicitModificationWarning is now exported {pr}315 {smaller}P Angerer~numpy.ndarray subclasses stored in AnnData objects {pr}335 {smaller}michalk8~pandas.Index objects by the make unique function {pr}348 {smaller}I VirshupAnnData.obs_vector and AnnData.var_vector now throws errors {pr}340 {smaller}I Virshup~anndata.AnnData objects from {class}~pandas.DataFrame {pr}316 {smaller}P AngererAnnData objects with arrays like adata[adata[:, gene].X > 0] {pr}332 {smaller}I Virshup315 {smaller}P Angererpandas {pr}319 {smaller}P AngererNothing published for this version
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