[Mauve-users] SNP extracting in Mauve

[Aleksander M. <ale...@nl...>]

Greetings Mauve community, 

I have a small problem with extracting SNPs from our Mauve alignment. 

We have a set of 50 genomes (same species but quite diverse). When extracting SNPs 
from s subset alignment (15 genomes) it works perfectly, but when I include all genomes, 
the output file remains empty. 

Doesn't seem to be lack of CPU or memory and I let it run for almost 12 hours. 

Do you have any experience with such problem? 
Are there other ways to extract SNPs from Mauve alignment? 

Thank you for any help you can provide. 

Best regards, 

Aleksander 

-- 
The National Laboratory of Health, Environment and Food (NLZOH) 
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