Tinyi Chu

Dear users, Thank you so much for your feedback and offering the solutions. I was just testing this on R4.2.3 on CentOS Linux release 7.6.1810 (Core), but was not able...

> Hi all, > > I've tested the program on my local machine and it works after significantly shrinking my datasets. So I've moved to a compute cluster to try...

Hi all, This should be caused by memory overflow. It is always a safe practice to reduce the number of thread. I have tried to fix the bug and improved...

Hi Alexandre, The key is not a valid string (which should be a character string that corresponds to malignant cells in cell.type.labels.). Please refer to the ? new.prism or the...

Apologize for the delay. There are two reasons that might have caused underestimated cell type fraction. The first is the reason you mentioned in the email: sparser scRNA-seq reference. The...

Yes. When using scNUC-seq as the input, please use the updated cell type fraction as the batch effect is often very strong. On Thu, Sep 1, 2022 at 5:11 PM...

yes. I will upload it shortly. On Wed, Jul 19, 2023 at 3:55 PM emilylasse ***@***.***> wrote: > Would you be able to provide your code for how to performed...

Hi Emily, Sorry for the delay. I have jsut uploaded the scripts to https://github.com/tinyi/BayesPrism_downstream_analysis/tree/main/Figure_3d , along with the input and output required for running the script. You may need to...

Hi Daniel, Thank you for your interest in our work. Sorry for the delay. I will dig into my code and get back to you soon. Best, Tinyi On Mon,...

Hi Daniel, Here are the scripts related to figure4e. https://github.com/tinyi/BayesPrism_downstream_analysis.git The scripts for downstream analyses are a bit scattered around as the manuscript has undergone multiple rounds of review with...