Nadège Guiglielmoni
Nadège Guiglielmoni
The largest one is 105 Mb. If the sequences length is a problem, I can filter out the largest ones, then the remaining ones should be up to 5 Mb.
We have updated NextDenovo for future projects. Here is the config file: ``` [General] job_type = local job_prefix = ND_ont task = assemble # 'all', 'correct', 'assemble' rewrite = yes...
We set it to 1001.
Ok thank you, I will try optimizing the seed cutoffs.
Hello, We ran the assemblies again with more adapter seed cutoffs. For PacBio assemblies, there is little change. For Nanopore assemblies, there is still a drop in N50 at 60X....
Hello, The parameters were the same as before, except for seed cutoff. Here are the results I had before with Nanopore reads: 40X: N50 = 11.5-14.5 Mb, single BUSCOs =...
Hello, You can already use Omni-C data. When processing the reads with hicstuff, use a value for -e, something around 100-1000 bp. Then your fragments will just be arbitrary fragments...
Hello, I think I have a similar issue. A user is encountering a problem when trying to run https://github.com/koszullab/instaGRAAL/, which relies on pycuda. This user is using a Tesla V100...
The problem was not really solved, they just switched to a different version where the display is disabled so it's only a workaround.
I am going to try the 2to3 branch because the previous solution did not work for me.