atarashansky
atarashansky
Ahh, sorry, Carlos - the documentation is unclear with regards to what data SAMAP is expecting. SAMAP expects the `AnnData.X` to be in sparse format (`scipy.sparse` matrix). Can you check...
Hi, thanks for flagging this. I'll update the requirements to pin the scipy package and then take a look to see what the breaking change is with the recent dependency...
> I ran into a related error (ValueError: Output dtype not compatible with inputs.) in mapping.py at line 1538: xs.append(sams[sid].adata[:,gns_dictO[sid]].X.astype("float16")) Thanks for reporting! Is this only an issue for 1.13.0?
If you have a SAMAP object with four species, you should be able to just pass in a list of the four species IDs into the sankey function. Alternatively, you...
Can you display screenshot `MappingTable.head()` and paste it here?
Can you paste the output of `pip list` here?
Can you `pip uninstall holoviews` and try again?
I can consult on this if necessary when it comes time to implementation
@ebezzi @ivirshup > The computationally derived markers should probably get versioned/ **computed** alongside a census release. These could even be part of the census object Regarding "computed": This will be...
I might be missing something, but I am not sure if we need anything more than the timestamp of the snapshot itself. Pick the highest version number in `s3://cellxgene-wmg-prod/snapshots/` and...