You signed in with another tab or window. Reload to refresh your session.You signed out in another tab or window. Reload to refresh your session.You switched accounts on another tab or window. Reload to refresh your session.Dismiss alert
I haven't run merfin yet for the illumina data I have yet, but wasn't entirely clear on the usage of the cartesian plot scripts. The input for cartesian_plot.R is the output of simplify_dump.sh, and the input for that should be $1=illumina.dump and $2=hifi.dump?
The text was updated successfully, but these errors were encountered:
It is interesting that the two axes are pretty heavily populated, but not the diagonal. I guess this may demonstrates that kmer bias for hifi is pretty independent of kmer bias for short reads?
Hi @ASLeonard , just saw this now. Sorry for the silence!
Yes, as far as I can tell, the k-mer bias was independent, so to speak.
The different error modes in HiFi and Illumina seem to be the cause of this;
we found homopolymer and microsatellite contraction in HiFi reads and the long-known GC biases in Illumina reads as shown here in T2T-CHM13.
I haven't run merfin yet for the illumina data I have yet, but wasn't entirely clear on the usage of the cartesian plot scripts. The input for cartesian_plot.R is the output of simplify_dump.sh, and the input for that should be
$1=illumina.dump
and$2=hifi.dump
?The text was updated successfully, but these errors were encountered: