LucasMcNU

Memory footprint in Rstudio

6

When loading .hic files is finished, there is a ton of memory not cleaned up. My .hic file after loading is ~ 3-4 GB, but the memory footprint in my...

Pileup Plot Score

1

Hi, I was curious if there is an easy way to extract the pileup score for the ATA or APA visualization? If this doesn't exist, it would be nice to...

[Q] Centromere Trans Pileup

2

Hi all, I was wondering if it's possible to reproduce the trans centromeric pileup plots from Figure 1b in [this paper](https://pmc.ncbi.nlm.nih.gov/articles/PMC10370019/) with Coolpup. I tried with our data (

Is CLAM still supported? I'm running into the following issue. `CLAM peakcaller -i P1KO_P1AB_R1_S13_L005_filt.sort.bam -c P1KO_Input_S23_L005_filt.sort.bam -o /projects/b1042/BackmanLab/Lucas/022025_RIPseq/ --binsize 200 --gtf /projects/b1042/BackmanLab/Lucas/022025_RIPseq/genome/gtf/ensembl_gtf/Homo_sapiens.GRCh38.113.gtf /home/lmc0633/.local/lib/python3.6/site-packages/pandas/compat/_optional.py:106: UserWarning: Pandas requires version '1.2.1' or newer...