Fritz Sedlazeck

Please update SURVIVOR. I am not 100% sure which subcommand of SURIVOR is used, but I assume the merge . This behavior in merge has been updated a couple of...

Dear Richard, the sniffles2 error points more to that there is some dates on index vs. bam file that is out of order. So I would check that first. "The...

Thats great. Can you load that bam file in IGV? (I assume indexing went ok ?) If all of this doesn't help you can of course share the bam with...

We are for sure using the read sequence. Sorry I missed that fact and digesting the table.... Maybe we can give a better error msg @smolkmo ? Thanks Fritz

Thanks Richard, let me know what you find out. Thanks Fritz

Dear Richard, this is very fresh, but apparently, if you use --moves_out on guppy the sequence and base qualities are kept. We haven't tested this yet and its clearly not...

Oh didnt work...

So we did a bit more digging. You can filter out supplement alignments and then it apparently should work.. "samtools view -F 0x800" .. I have already reached out to...

Here is what ONT just released: https://community.nanoporetech.com/posts/guppy-6-3-7-release

Hi Carlos, What we are currently doing is to run all 3 samples with the --snf parameter. Then do the merging. We are also experimenting with the --genotype parameter for...