Entering edit mode
4 weeks ago
Hi, Currently im using ArchR to analyzed my scATAC-seq data, after doublets identification and removal each run via using same threshold, same data but we got different number of fragments. is there anyone have idea how i can fix this problem.
Could you elaborate a bit more on your issue and add your code to your post ?
AddDoubleScores
after removed these doublets via using
2. Filtering doublet using default setting
Merged.proj2 <- filterDoublets(Merged.proj,filterRatio = 1.2)
Visualize the output
Merged.proj2 numberOfCells(1): 21335
Thank You for your response.