seqstats VS bwa-mem2

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

seqstats

Quick summary statistics on fasta/fastq(.gz) files (by 7PintsOfCherryGarcia)

bwa-mem2

The next version of bwa-mem (by bwa-mem2)
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seqstats bwa-mem2
1 2
0 670
- 2.1%
1.8 2.6
over 2 years ago 3 months ago
C C++
MIT License 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.

seqstats

Posts with mentions or reviews of seqstats. 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 | /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 2022-06-28.
  • 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 seqstats and bwa-mem2 you can also consider the following projects:

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

bowtie2 - A fast and sensitive gapped read aligner

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.

GenomicSQLite - Genomics Extension for SQLite

vg - tools for working with genome variation graphs

IntaRNA - Efficient target prediction incorporating accessibility of interaction sites

megahit - Ultra-fast and memory-efficient (meta-)genome assembler

Klib - A standalone and lightweight C library