Huidong Chen

For the example dataset `data_Nestorowa.tsv.gz`, it should not take that much memory. There must be something wrong there. It works on my local laptop with 16 GB memory so it...

Hi, Thanks for trying STREAM and your feedback! Unfortunately JASPAR database is hardcoded currently (due to the concerns about software compatibility). But I will try to add the option of...

Can you check if the package `networkx` version is `2.1`? Since some functions have changed in later version, to make sure STREAM still works, you need to install the version...

It looks like `Mutant_adata.X` is a sparse matrix, which resulted in the error you are seeing. Unfortunately for the current version, sparse matrix is not supported yet. One quick fix...

Hmmm, they seem already numpy arrays, which kind of contradicts the previous error.. is there a dummy dataset you can share to reproduce the issue? I m happy to take...

The two anndata objects both look fine to me. It's difficult to understand what's going on without knowing the output of `Mutant_adata.var` and `Mutant_adata.var_keys()`. Not sure if you can share...

Hi, Thanks for sharing the data. I was able to reproduce the error. Basically the error was caused by the auto-change of variable keys of the same name when concatenating...

No problem. I'm glad the above solution worked out for you. Re the plotting error, unfortunately I was not able to reproduce it. With the same dataset you shared previously,...

Hi Thanking for trying STREAM. Were you able to finish the mapping step? Does this error only happen when visualizing the results?

Hi I tested it on the example dataset shown in Github using 'top_pcs' as the feature for mapping. It doesn't seem that i see any errors. Would you mind sharing...