Matthew Bernstein

Just to clarify, do you mean that the pipeline didn't work until you inserted this code to download that dataset? What error did you receive otherwise?

Hmm, I'm not sure what the issue might be. I do not have very much experience with Conda. Does Conda have an alternative way to specify the location of Python...

Hi, it looks like this is an issue with your graphviz installation. Do you know how you installed graphviz? I would recommend using conda: `conda install -c anaconda graphviz`

Sorry to hear you are still having trouble. You may want to try installing pygraphviz through conda as well: https://anaconda.org/conda-forge/pygraphviz

Hi Chris, Here's an article that may help you running a Jupyter notebook on a remote server using SSH tuneling: https://docs.anaconda.com/anaconda/user-guide/tasks/remote-jupyter-notebook/

My apologies for the trouble. I just fixed the bug. If you re-install CellO via `pip install -U cello-classify`, then the new version should hopefully work now. Let me know...

Hi, thank you very much for your feedback! Regarding 1.) yes indeed CellO does not work on sparse matrix formats. That is a feature we would definitely like to add....

Hi, I apologize for the delay in fixing this issue. Would it be possible to send me the pre-trained model file and an expression matrix on which this fails?

Thank you very much for addressing this issue! My only hesitation with this fix is that theoretically there should be a prediction for every sample... I'm not sure what is...

I believe that this scoring algorithm was implemented in Seurat, but it looks to be originally devised in Tirosh et al. (2016) cited above. Here is the documentation for the...