Low coverage genome simulation
Hello!
Is there any program you can recommend me to simulate a genome? I want to simulate a low coverage genome, similar to that obtained from ancient DNA.
Thank you
Cheers
Manuel
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2 answers
You could check out PLINK2's simulation function - note that this doesn't simulate the LD patterns that you would find in real data, however - it is worth reading the original PLINK documentation on this as well
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We created a set of programs called gargammel that can simulate the reads once you have the fasta file of the genome:
For simulating demographies, I have been using msprime.
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