Open foreignsand opened 3 months ago
Hi, yes, that's correct. I'll update the Blobtools section as soon as I can describing how I have it working. It is the simplest configuration I could set up.
In any case, I'd recommend to check this: https://pipelines.tol.sanger.ac.uk/blobtoolkit .
Great! I've looked at the blobtoolkit pipeline and it's a bit esoteric. Any guidelines you can provide would be much appreciated.
Thanks so much!
Cheers, Emily
In the flowchart depicting the pipeline used by CCGP for genome assembly, there is a line connecting the 'Contamination Screening: BlobToolKit' box to the 'ARIMA Mapping Pipeline' box. This suggests that HiC reads are mapped to contigs produced by HiFiasm after they have been decontaminated using BlobToolKit. Is this correct?
I find the BlobToolKit docs to be a bit opaque and am hoping I can avoid puzzling out the pipeline for a little while longer.
Cheers, Emily