Jean Monlong

What would you recommend to very quickly extract mean/median coverage (+the insert size info) for CRAMs? 5 mins with mosdepth is pretty good but say we don't want that much...

Adding to the thread that Google Docs now has a feature to compare two documents (in *Tools* -> *Compare documents*). So we can build the DOCX output for two versions...

Thanks, that looks promising. It still requires someone to go through them one by one but at least there's no need to convert the manuscript to docx. I think next...

Thanks for the quick reply and the PR. > Would it work to make sure the SI starts on a new PDF page at the end of the document (using...

I'm not sure I understand. Just to clarify, in practice all the references containing a Consortium didn't format well in the final output of the manuscript (when using `@doi:`). The...

I've had some success by using a higher kmer size **during the pruning**. I didn't change the default kmer size used for the gcsa indexing. I ran something like: ```...

Thanks for the answer Hannes. Picking "AGGREGATED" helps a lot but there are still SVs where a same-ish variant is present multiple times. Mostly insertions I think. The block I...

I was having the same problem and might have found a workaround while the bug is getting fixed. It seems like it's interpreted correctly when including another singularity argument, e.g....

I'd be interested to know about this too. Do you know if that happens with `-t 1`? I know the multi-threading can add some nondeterminism sometimes. Not a solution but...

Hi, I'm having the same issue on different graphs (one made by minigraph or and one by cactus). When you say different machines, do you think different docker images could...