high frequency subsequences
Hi I have a little problem I can't wrap my head around:
I have a FASTA file with relatively short reads (around 80bp) and I want to find high frequency subsequences of a maximum lenght of 15bp of this FASTA file.
So I would need a programm or cript that outputs those subsequences with their count.
Do you have any ideas?
cheers
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Ram
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setschmann •
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setschmann •
1 answer
you might want to have a look at Kmer counting tools such as JellyFish, KAT, ntCard and such
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lieven.sterck
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