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Using jellyfish in a slide window analysis

Hi there guys.

There are a way to do something like this:

samtools faidx myfasta.fna; bedtools makewindows -w 1000 -g myfasta.fna.fai; jellyfish count -m 12 -o myfasta.jf -s 10000000 -t 32; jellyfish dump -c mmyfasta.jf

To count some mers in a fasta file in one go?

Thanks in advance. Paulo

samtools jellyfish slidewindow
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written by schlogl schlogl

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