vg VS bwa-mem2

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

vg

tools for working with genome variation graphs (by vgteam)
variation-graph Graph genome-graph Genomics Dna
Source Code
biostars.org
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bwa-mem2

The next version of bwa-mem (by bwa-mem2)
Bioinformatics Genomics sequence-alignment
Source Code
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vg bwa-mem2
2 2
1,056 674
1.2% 1.5%
9.4 2.6
5 days ago 4 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.

vg

Posts with mentions or reviews of vg. We have used some of these posts to build our list of alternatives and similar projects.
  • VG v1.36.0 just released!
    1 project | /r/UCSC | 11 Nov 2021
    Just released! VG v1.36.0, available at https://github.com/vgteam/vg/releases/tag/v1.36.0 offers improvements vg clip, including an option for clipping out big deletion edges while skipping multiple specified alleles.
  • VG v1.34.0 Release!
    1 project | /r/UCSC | 18 Aug 2021
    Just out! vg v1.34.0 code-named "Arguello" is available now: https://github.com/vgteam/vg/releases/tag/v1.34.0

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 2022-06-28.
  • Anyone use DRAGEN-GATK?
    1 project | /r/bioinformatics | 12 Oct 2022
    If you haven’t heard of it already you may want to check out https://github.com/bwa-mem2/bwa-mem2 which is a faster version of bwa-mem. I’ve been using it for a while now and found it to be quite stable, same results as the original and the speed improvement is nice.
  • Software Development Project
    2 projects | /r/bioinformatics | 28 Jun 2022
    I’ve recently switched to bwa mem2 and the speed increase is nice for what is basically a drop in replacement (after a bit of validation to make sure that was true). https://github.com/bwa-mem2/bwa-mem2

What are some alternatives?

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

QuickQanava - :link: C++17 network / graph visualization library - Qt6 / QML node editor.

minimap2 - A versatile pairwise aligner for genomic and spliced nucleotide sequences

euler - A distributed graph deep learning framework.

bowtie2 - A fast and sensitive gapped read aligner

seq - A high-performance, Pythonic language for bioinformatics

minimap2 - A versatile pairwise aligner for genomic and spliced nucleotide sequences

htslib - C library for high-throughput sequencing data formats

edlib - Lightweight, super fast C/C++ (& Python) library for sequence alignment using edit (Levenshtein) distance.

seqstats - Quick summary statistics on fasta/fastq(.gz) files

GenomicSQLite - Genomics Extension for SQLite

IntaRNA - Efficient target prediction incorporating accessibility of interaction sites

vg vs QuickQanava bwa-mem2 vs minimap2 vg vs euler bwa-mem2 vs bowtie2 vg vs seq bwa-mem2 vs minimap2 vg vs bowtie2 bwa-mem2 vs htslib bwa-mem2 vs edlib bwa-mem2 vs seqstats bwa-mem2 vs GenomicSQLite bwa-mem2 vs IntaRNA