Yeah nobody should be using bwa mem any more Except that it nf-core #pipeline-maintainers

Yeah, nobody should be using bwa mem any more. Exc...

Simon Pearce

07/21/2026, 9:46 AM

Yeah, nobody should be using bwa mem any more. Except that it takes effort to make the switch, and you have to build a different index for bwamem2

party this 2

Phil Ewels

07/22/2026, 8:17 AM

This is a rewrite of bwa-mem2 sorry. Lazy fingers.

Phil Ewels

07/22/2026, 8:17 AM

I think they renamed it to bwa-mem4 since I posted the above 😅

🤣 1

Phil Ewels

07/22/2026, 8:18 AM

But byte identical outputs and indexes to bwa-mem2 apparently