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gmarcais / Jellyfish

A fast multi-threaded k-mer counter
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Genome masking #179

Open xbarvazx opened 2 years ago

xbarvazx commented 2 years ago

Hi,

Is it possible to use jellyfish for masking, similar to bbduk (which is limited to 31mer)? The idea is to find kmers that repeat more than once in the genome and mask them. Or do you know of downstreem tools that can use jellyfish count output for masking?

Best, Raz