Comments (1)
Hi,
Simka is a tool designed for comparing raw read samples, and not individual sequences such as genomes. Therefore, all sequences in a multifasta file are considered belonging to the same entity to be compared.
The only way I can see to compare your 200,000 sequences with Simka would be to split your multifasta file in 200,000 fasta files containing each only one sequence, which I agree is not very practical in your case.
Claire
from simka.
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