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speed up #14
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Hi Michal, For larger genomes (>1Gb), we recommend using one chromosome of one genome as the query sequence and the entire other genome as the target sequence, and process alignments one query chromosome at a time. Best, |
Hi Jon, Thank you in advance, Michal |
Hi @mictadlo, were you able to resolve this issue? If I were to run Satsuma2 for each chromosome, I would appreciate it if you could provide guidance on how to proceed with combining the output from Satsuma and generate a figure using the ChromosomePaint command.
Here's my command per chromosome of the target reference genome:
I have 10 genomes of interest so if there is an easier way to do this, that would be much appreciated. |
Hi,
I compare 2 assemblies (2.7 G) together but satsuma is running for more than 140 hours. By any chance, does anyone knows whether there is a way to split the data and run it on multiple nodes?
Thank you in advance,
Michal
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