search

ay-lab / dcHiC

dcHiC: Differential compartment analysis for Hi-C datasets
MIT License
55 stars 10 forks source link

pca select error: hclust #92

Closed katecycho closed 4 months ago

katecycho commented 4 months ago

Hello,

Sorry to be raising so many issues. I am re-running dchic on selected samples from the previous run, but this time grouping them as replicates (3 groups, ~30 samples total). They ran fine on the past run so I am not sure what the issue is but I keep getting this error. I have removed the blacklist and chrX, and have tried at 50kb and 100kb res.

Rscript dchicf.r --file input.txt --pcatype select --dirovwt T --genome hg38 Do you have any idea how I could troubleshoot? I have attached my input file and pictures of the error.

Screenshot 2024-02-27 at 10 28 21 PM

Screenshot 2024-02-28 at 8 44 03 AM input.txt

ay-lab commented 4 months ago

Do you have the folder? Can you list the files inside that directory?

Also, when you're rerunning, please make sure you don't have any old-run files. It's a good idea to start fresh, otherwise dchic can fetch any existing file.

katecycho commented 4 months ago

Screenshot 2024-02-28 at 11 51 48 AM

Ok. I only used the same .matrix and .bed files in a new folder but I can also re-generate them. Thank you