Zev Kronenberg
Zev Kronenberg
@iqbal-lab I'd like to try cortex for kmer extraction. Can you point me to the repo, I've briefly searched, but didn't find it? Wasn't cortex earlier than McCortex?
@NeillGibson @JorisBenschop You're correct. I haven't had time to work on it. @ekg can PRIMITIVE strip out the unused GT fields and is that something you can do? I've looked...
DP can be tricky. Do you just want the sum of the genotype DPs?
@NeillGibson I'll add that feature in the next couple days. Thanks for the suggestions.
Dear @lh3, We are testing out trio binning and it looks like our binned assemblies are more fragmented than the non-binned assemblies. Both haplotypes have good coverage. Is there a...
Hi @lh3, Thank you for sharing these ideas. Just confirming, you think triobinning isn't as effective as just assembling and phasing in a single genome? That has been my experience,...
I too, am having the same issue. Nim is in my path and I also manually set the path to the bin folder with no trailing slash. (MacOS Mojave, Atom...
bump, same issue.
@ocxtal Sorry I didn't reply sooner. Thank you for the updates. I will re-run the alignments after the thanksgiving holiday. What parameters would you suggest for -L and -H to...
Hi @KamilSJaron, You'll need this dependency https://github.com/brentp/hts-nim Dude where's my car?