bwa-mem2
The next version of bwa-mem (by bwa-mem2)
GenomicSQLite
Genomics Extension for SQLite (by mlin)
Our great sponsors
| bwa-mem2 | GenomicSQLite | |
|---|---|---|
| 2 | 1 | |
| 585 | 133 | |
| 1.4% | - | |
| 0.0 | 4.9 | |
| 14 days ago | 30 days ago | |
| C++ | C++ | |
| GNU General Public License v3.0 or later | Apache License 2.0 |
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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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
GenomicSQLite
Posts with mentions or reviews of GenomicSQLite.
We have used some of these posts to build our list of alternatives
and similar projects. The last one was on 2022-07-31.
-
sqlite-zstd: Transparent dictionary-based row-level compression for SQLite - An SQLite extension written in Rust to reduce the database size without losing functionality
Yes, that is indeed an obviously missing part. I knew about ZIPVFS, but somehow forgot to investigate closer. Probably because I started this project before GenomicsSQLite was a thing (that seems like the best alternative).
What are some alternatives?
When comparing bwa-mem2 and GenomicSQLite 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
hap.py - Haplotype VCF comparison tools
megahit - Ultra-fast and memory-efficient (meta-)genome assembler
Klib - A standalone and lightweight C library
seqstats - Quick summary statistics on fasta/fastq(.gz) files