Closed iwillham closed 5 years ago
@iwilliams91 I am sorry, I haven't noticed your question until right now! Forgot to subscribe to issues. My apologies.
We are using FIt-SNE, and it has R wrapper that is very similar to the Python wrapper. So you can just follow the same steps in R. Let me know if you have more specific questions.
Closed due to inactivity.
I have some experience using R (no Python unfortunately) but am having some trouble figuring out how to implement your t-SNE pipeline. In the preprint, you mention that it should be relatively easy to implement in R. What would you recommend as a general approach? Using a Python interface package like reticulate to run the Python functions? Writing an R script de novo to accomplish the same tasks as in the tutorial? Something else?
I found your explanation of the appropriate uses of t-SNE and tradeoffs in parameter selection to be very intuitive. I hope to work this approach into my normal analysis routine for sc-RNA-Seq data. Any help would be greatly appreciated. Thanks!