Azim Dehghani Amirabad issues

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                                            Azim Dehghani Amirabad

Bug in addBgdPeaks() function

Hi, I'm trying to compute motif deviation. I did peak calling, and everything went well. Unfortunatly, I get the following error when I try to add background peaks to my...

bug

Code for creating differentiual_Summary objects is missing

I went through your pipeline and the part that is producing the first two input files for scRNA_scATAC_Integration_04_Link_TFs_To_Targets.R script is missing. Could you please clarify about this part futher? ```...

optimizeLSI for scRNA-seq gives Error in if (n < 0L) max(length(x) + n, 0L) else min(n, length(x)) :

Hi, I've tried to run scRNA_01_Clustering_UMAP_v1.R using default parameters, and the "scRNA-All-Hematopoiesis-MPAL-191120.rds" as input. When I do run the #Optimize LSI Features lsiObj