scrublet
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swolock
Detect doublets in single-cell RNA-seq data
As I follow the Chromium User Guide[https://support.10xgenomics.com/permalink/3vzDu3zQjY0o2AqkkkI4CC](url) However, the number of my samples greatly beyond it, (e.g. One sample had 21546 cells), I want to know how to set the...
Hello, I just got the final results from scrublet, I want to know how to use the file to perform QC?
Hi, Can I use the xxx.rds as the input file? Thank you!
Hi there, Thanks for a great tool! I have a very basic question that comes from my complete lack of python know-how (I normally work in R). I just want...
I am getting this error when trying to import scrublet: ``` import scrublet as scr Traceback (most recent call last): File "", line 1, in File "C:\Users\danie\scrublet.py", line 1, in...
Hi, I tried to run scrublet, but the command scrub = scr.Scrublet(count_matrix) took more than 5 hours to run and then it terminated python. Any suggestions? Thanks
Hello all, I've run scrublet exactly following the instruction [here](https://github.com/swolock/scrublet/blob/master/examples/scrublet_basics.ipynb), only to end up with the error 'Segmentation fault (core dumped)' after the command 'scrub.set_embedding('UMAP', scr.get_umap(scrub.manifold_obs_, 10, min_dist=0.3))'. Any suggestions?...
Hi, Have you seen a similar behavior of picking a threshold using skimage.filters threshold minimum as below before? The threshold automatically set by Scrublet was 0.74 and it seems very...
Good afternoon, Thanks for making this package @swolock! It runs great (and fast). I have a few questions regarding the 'quest for bimodality' of the doublet scores for the simulated...
Hi, @swolock Thanks for developing this package. I wonder, is there any way to cross-validate the predicted doublets? In that way, it will give us a sense whether it is...
