Anyone with experience using Jellyfish derived histograms?
I've done all the necessary bits and now I get to drawing up my histogram and it looks nothing like its supposed to! There's no peak or humps - it just starts at the top and slopes downward to flatten out at the bottom!
The scripts for running Jellyfish were as follows:
jellyfish count -t 8 -C -m 19 -s 5G -o filename.jf read.fastq jellyfish dump filename.jf > filename.fa jellyfish histo -o filename.histo filename.jf
My Kmer value of 19 comes from values obtained by running KmerGenie.
I dumped the histo file into Excel to take a look at the histogram.
Can anyone spot a problem, or has encountered this before? Am I using the wrong Kmer size? Or is there an underlying problem with my sequencing data?
Thanks in advance