bwa-mem2
The next version of bwa-mem (by bwa-mem2)
sqzlib
Blocked bases fastX encoding and compression (by 7PintsOfCherryGarcia)
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| bwa-mem2 | sqzlib | |
|---|---|---|
| 2 | 1 | |
| 674 | 1 | |
| 1.5% | - | |
| 2.6 | 4.7 | |
| 4 months ago | 10 months ago | |
| C++ | C | |
| GNU General Public License v3.0 or later | MIT License |
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.
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.
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.
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Anyone use DRAGEN-GATK?
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.
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Software Development Project
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
sqzlib
Posts with mentions or reviews of sqzlib.
We have used some of these posts to build our list of alternatives
and similar projects. The last one was on 2021-11-21.
What are some alternatives?
When comparing bwa-mem2 and sqzlib you can also consider the following projects:
minimap2 - A versatile pairwise aligner for genomic and spliced nucleotide sequences
minimap2 - A versatile pairwise aligner for genomic and spliced nucleotide sequences
bowtie2 - A fast and sensitive gapped read aligner
Klib - A standalone and lightweight C library
seqstats - Quick summary statistics on fasta/fastq(.gz) files
htslib - C library for high-throughput sequencing data formats
bwa-mem2 - The next version of bwa-mem
edlib - Lightweight, super fast C/C++ (& Python) library for sequence alignment using edit (Levenshtein) distance.
vg - tools for working with genome variation graphs
GenomicSQLite - Genomics Extension for SQLite