Jared Simpson
Jared Simpson
For 1) the variables used in the final status line (`[post-run summary] num reads:`) are not protected by a mutex, so the numbers may vary a little when running with...
I can't really say without seeing the data and having an example to debug. Is it possible the .bam file was incomplete when nanopolish eventalign was started in the 13GB...
Could you check whether the 41GB file contains any duplicated data? I suggest grepping for a single read name in each file to see whether the number of lines match...
It is just a warning that you can ignore. Nanopolish is not designed for transcriptome data so it is unlikely to work well for this case, sorry.
You can ignore this warning. Also just a note but nanopolish isn’t designed for transcriptome polishing and I doubt it will work well. > On Aug 17, 2022, at 8:16...
Given you sequenced viral amplicons it is likely the sequencing depth is excessively high. Try downsampling the .bam file to have 100-500x coverage.
Hi, No problem at all. This dataset seems to use the older style of one fast5 per read (rather than the current 4000 reads per fast5). Nanopolish should be able...
I'm sorry to say that I haven't had a chance to do this. On Thu, Nov 10, 2022 at 2:51 PM Francesco Emiliani ***@***.***> wrote: > Sorry to bring up...
That's odd, double backslashes shouldn't have any effect in most filesystems. What operating system are you on?
@sjackman, would this tool by @arq5x fit your needs? https://github.com/arq5x/piledriver