BaDoi Phan

low map rate for 10X scATAC-seq

24

I'm aligning 10x genomics scATAC-seq to the rheMac10 genome. The sequencing is 50bp for R1 and R2 paired-end sequencing on the Novaseq. The genome was built with k`17` and w`7`...

save macs2 fold enrichment signal value in summits

5

Currently, the narrowPeak signal value at the summit isn't saved, and this quick fix allows this metric to be added to the replicate summits `.rds` file for downstream uses.

CoGAPS checkpoints not enabled

5

I'm using scCoGAPS and haven't been able to use the checkpoint saving steps. I found that the `checkpointsEnabled()` is set to `FALSE`, with no clear way to change this. I've...