Thanks for this great package. I have been able to integrate multiple fragment files together into an AnnDataSet and perform the harmonization steps shown in the tutorial. However, after I do, this I can no longer perform downstream analysis like gene imputation because the AnnDataSet object loses the .obsm that is associated with each individual adata/fragment file. How can I address this issue?
The error I get is:
neither 'fragment_single' nor 'fragment_paired' is present in the '.obsm'
kaizhang
commented
3 months ago
Hi Kai,
Thanks for this great package. I have been able to integrate multiple fragment files together into an AnnDataSet and perform the harmonization steps shown in the tutorial. However, after I do, this I can no longer perform downstream analysis like gene imputation because the AnnDataSet object loses the .obsm that is associated with each individual adata/fragment file. How can I address this issue?
The error I get is:
neither 'fragment_single' nor 'fragment_paired' is present in the '.obsm'Thanks, William