You signed in with another tab or window. Reload to refresh your session.You signed out in another tab or window. Reload to refresh your session.You switched accounts on another tab or window. Reload to refresh your session.Dismiss alert
Hi I'm using sc.external.pp.mnn_correct to correct three batches with in total 13383 obs and 6214 vars in jupyterlab.
I'm using: scanpy==1.7.2 anndata==0.8.0 umap==0.5.2 numpy==1.21.5 scipy==1.8.0 pandas==1.4.1 scikit-learn==1.0.2 statsmodels==0.13.2 python-igraph==0.9.9
with mnnpy 0.1.9.5
The kernel (always) died right after it gets in adjusting variance step
I noticed the anndata version mnnpy is using should be 0.6.22 while scanpy 1.7 uses 0.8. Could this be with the version conflict? I didn't get any error report before the crash.
Best,
The text was updated successfully, but these errors were encountered:
Hi I'm using sc.external.pp.mnn_correct to correct three batches with in total 13383 obs and 6214 vars in jupyterlab.
I'm using: scanpy==1.7.2 anndata==0.8.0 umap==0.5.2 numpy==1.21.5 scipy==1.8.0 pandas==1.4.1 scikit-learn==1.0.2 statsmodels==0.13.2 python-igraph==0.9.9
with mnnpy 0.1.9.5
The kernel (always) died right after it gets in adjusting variance step
I noticed the anndata version mnnpy is using should be 0.6.22 while scanpy 1.7 uses 0.8. Could this be with the version conflict? I didn't get any error report before the crash.
Best,
The text was updated successfully, but these errors were encountered: