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jellyfish genomescope
Eaton Lab edited this page Sep 28, 2020
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To be compared with kmerfreq + gce
https://github.com/gmarcais/Jellyfish/tree/master/doc#Counting-high-frequency-k-mers
https://github.com/schatzlab/genomescope
Pros:
- Uses much less RAM than kmerfreq, which is especially useful if we want to run this on cloud instances where high-mem costs more money.
Cons:
- requires installing R