anndata
anndata copied to clipboard
scverse
Annotated data.
- [ x] I have checked that this issue has not already been reported. - [ x] I have confirmed this bug exists on the latest version of scanpy. -...
I see inconsistent behavior between anndata 0.8.0 and 0.7.8. I created an AnnData file from a Seurat object. This is serialized to disk, and read in python using 'sc.read(annDataFile)'. When...
## Description When saving an AnnData object to disk, keys of a dictionary whose value is `None` seem not to be saved. ```python import numpy as np import scanpy as...
In one instance of treating anndata as a dependency within flit, I now get: ``` from anndata import AnnData -> ImportError: cannot import name 'AnnData' from 'anndata' ``` When I...
I'm trying to use `anndata.concat()` to merge two AnnData objects with the following structure: ``` object_1 = { ... uns: { "property": { "0": None } } ... } object_2...
Hi! I have been using `scanpy` and `anndata` and start noticing potential difficulties as we analyze more complex datasets. ### Problem There can be a ballooning number of implicit dependencies...
Hi, Scanpy's `sc.read_h5ad` method appears to be having an error in how it is reading our AnnData HDF5 file when we use the new 0.8.0 version of the AnnData library:...
Hello guys, We would like to express our respect for your work and ask for an advice with documentation. We develop a C++ application that exports Anndata to *.hdf5 file....
DocSearch seems to be down for the anndata docs. I believe we need to update it for the new version of DocSearch as well.
Forgot to deprecate AnnData.concatenate for the 0.8 release, [as we said we'd do in the `concat` docs](https://anndata.readthedocs.io/en/latest/concatenation.html). - [ ] Deprecate AnnData.concatenate - [ ] Update docs for `ad.concat` and...