Jean Peccoud

No this doesn't seem relevant. It does not discuss issues with overlap detection in mpileup.

I didn't know that read pairs had to be mapped in proper pairs. Why this requirement? Paired reads come from the same template, regardless of how they mapped. And if...

If two mates overlap, it's absolutely sure that bases are covered twice by the same template. Why wouldn't they? That the aligner set some particular flag does not alter this...

> > And if they do overlap, this further support the fact that these reads come from the same > > template. Including both reads in the counts does not...

> The overlap detection is a hack on top of the original code. It lowers base qualities of overlapping bases so that they are effectively removed from variant calling. Well,...

Ok I had overlooked option `-M`. :) With the command you suggest, samtools is now quite a bit faster than Rsamtools. So I guess that, at least for `view`, my...

You can pick 5120*2880 by choosing "exclusive fullscreen".

Indeed, and other games support this without issue. I even think that some source game do.

Dota 2 may be one of the very few recent games not supporting high-dpi resolutions. Is there a particular reason for this? Will this be a "won't fix"? I also...

It's not satisfactory IMO, because this option only enables the full res in fullscreen mode. This is too high on my 5K iMac. I prefer playing just below 5k, which...