minimap2 VS bwa-mem2

Compare minimap2 vs bwa-mem2 and see what are their differences.

minimap2

A versatile pairwise aligner for genomic and spliced nucleotide sequences (by 7PintsOfCherryGarcia)

bwa-mem2

The next version of bwa-mem (by 7PintsOfCherryGarcia)
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minimap2 bwa-mem2
1 1
0 0
- -
4.1 2.3
9 months ago 9 months ago
C C++
GNU General Public License v3.0 or later GNU General Public License v3.0 or later
The number of mentions indicates the total number of mentions that we've tracked plus the number of user suggested alternatives.
Stars - the number of stars that a project has on GitHub. Growth - month over month growth in stars.
Activity is a relative number indicating how actively a project is being developed. Recent commits have higher weight than older ones.
For example, an activity of 9.0 indicates that a project is amongst the top 10% of the most actively developed projects that we are tracking.

minimap2

Posts with mentions or reviews of minimap2. We have used some of these posts to build our list of alternatives and similar projects. The last one was on 2021-11-21.
  • sqzlib - kseq compatible DNA fastA/Q encoding and compression library
    5 projects | reddit.com/r/bioinformatics | 21 Nov 2021
    Most importantly, sqzlib is fully compatible with klib/kseq.h one of the highest performance fastA/Q parsers. This means that any application that uses kseq.h for fastA/Q parsing, can be easily modified to use sqzlib instead. You can find patched versions of seqstats, minimap2, and bwa-mem2 in my github, or you can patch them yourself with the included patches.

bwa-mem2

Posts with mentions or reviews of bwa-mem2. We have used some of these posts to build our list of alternatives and similar projects. The last one was on 2021-11-21.
  • sqzlib - kseq compatible DNA fastA/Q encoding and compression library
    5 projects | reddit.com/r/bioinformatics | 21 Nov 2021
    Most importantly, sqzlib is fully compatible with klib/kseq.h one of the highest performance fastA/Q parsers. This means that any application that uses kseq.h for fastA/Q parsing, can be easily modified to use sqzlib instead. You can find patched versions of seqstats, minimap2, and bwa-mem2 in my github, or you can patch them yourself with the included patches.

What are some alternatives?

When comparing minimap2 and bwa-mem2 you can also consider the following projects:

Klib - A standalone and lightweight C library

sqzlib - Blocked bases fastX encoding and compression