Ryan Wick

Okay, thanks. If there aren't data privacy issues, is there any chance you could share some of those reads? It might help me to get the new kit adapters into...

Hmmm, that's a interesting one. Our first hypothesis that is your reads are a mix of different genomes, as this has been the cause of weird SRST2 results in the...

Yes, this one could be solved either by specifying barcodes (https://github.com/rrwick/Porechop/issues/42) or by randomly subsampling the input reads. In the meantime, don't forget that if you give Porechop a directory...

I agree! Re-running Trycycler reconcile over and over can be time consuming, especially for the cluster of chromosomal contigs (larger sequences take longer to run). I hope to re-engineer Trycycler's...

I've just pushed (52b8c1f) a small improvement to this issue: `trycycler reconcile` now attempts to circularise all the contigs before it quits with an error message. So if 3 contigs...

Thanks - I'll add this to my future feature list. In the meantime, I appreciate the workaround!

I think it all depends on what you're planning on using the reads for. As an example, if you ultimately just want adapter-free reads, it doesn't make sense to have...

Hi Arturo, There is not currently a Trycycler command to make a GFA from an assembly, but it wouldn't be difficult to do. Each contig sequence would form a segment,...

Hi Alex, I'm not certain, but this may be due to a mismatch with Racon versions. The current version of Rebaler _requires_ a current version of Racon (1.0+, I think)...

Yes, that's a good one. I'd more generally like to add the feature where any adapter or kit can be specified on the command line. When these are used, Porechop...