Yueqi Wang

In addition, ~90% of the cells that are predicted to be doublets in my dataset (using the default p_val cutoff) simply have p=1.0 in almost all iterations, making it hard...

Yes the data was aggregated from 4 runs and there are batch effects in the raw counts. I tried running on individual runs, and it does seem to help. I...

> No papers have been published yet Since the algorithm has been available for a while, I'm curious if other research groups are using this approach in their papers. If...

> I would be cautious when running on data that is more continuous as it's possible some of the synthetic cross-type doublets resemble particular cell states. Yes. This is very...

Thanks! I misunderstood how the doublet parents are chosen (I thought they're chosen based on the clustering). Just to make sure I understand the algorithm correctly: synthetic doublets and original...

@xinwen-cs The above solution helped to some extent. You can look at the Matlab code from the BFM model to understand how the calculation works.

Same error: ``` Creating h5Seurat file for version 3.1.5.9900 Adding counts for RNA Adding data for RNA Adding scale.data for RNA Adding variable features for RNA No feature-level metadata found...

I think I might have found the answer: https://github.com/tanghaibao/goatools/blob/master/notebooks/cell_cycle.ipynb https://github.com/tanghaibao/goatools/blob/master/tests/test_genes_cell_cycle.py

Hello Christof, is there any update on this issue? I figured out a way to install `stfio` for **Anaconda Python** on both `Ubuntu 16.04` and `macOS Sierra`. - I first...

Thanks for the fast reply. I'm only working with Axon pClamp `.abf` file format, so `stfio` without `biosig` works for me already. - I tried to install with `configure --with-biosiglite`....