I came across the paper titled "The Brassica oleracea genome reveals the asymmetrical evolution of polyploid genomes".(http://www.nature.com/ncomms/2014/14...ncomms4930.pdf)
In this paper they used jellyfish to estimate genome size. Please help me how to estimate genome size using jellyfish.
Normally jellyfish outputs in 17 kmer (multiplicity (x axis) and number of distinct k-mer with given mulitiplicity (Y axis))
as shown in https://banana-slug.soe.ucsc.edu/bio...ools:jellyfish.
But in this paper they used to Depth (x axis) and Frequency % (Y axis) to estimate genome size of Brassic using 17 kmer (attached image link below).
Please let me know how to calcuate it.
for eg. Jellyfish output below, how to convert multiplicity to depth and no.of distinct k-mer to frequency (%)?
Multiplicity No.of distinct k-mer
1 677679866
2 243735232
3 148239594
4 161663928
In this paper they used jellyfish to estimate genome size. Please help me how to estimate genome size using jellyfish.
Normally jellyfish outputs in 17 kmer (multiplicity (x axis) and number of distinct k-mer with given mulitiplicity (Y axis))
as shown in https://banana-slug.soe.ucsc.edu/bio...ools:jellyfish.
But in this paper they used to Depth (x axis) and Frequency % (Y axis) to estimate genome size of Brassic using 17 kmer (attached image link below).
Please let me know how to calcuate it.
for eg. Jellyfish output below, how to convert multiplicity to depth and no.of distinct k-mer to frequency (%)?
Multiplicity No.of distinct k-mer
1 677679866
2 243735232
3 148239594
4 161663928
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