genozip VS tamtools

Compare genozip vs tamtools and see what are their differences.

genozip

A modern compressor for genomic files (FASTQ, SAM/BAM/CRAM, VCF, FASTA, GFF/GTF/GVF, 23andMe...), up to 5x better than gzip and faster too (by divonlan)
Genomics Compression fastq Vcf bam Sam Fasta gvf 23andme Gzip bgzip Samtools bwa cram
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tamtools

Create and manage hybrid reference assemblies to consolidate two original DNA alignments against different reference assemblies. (by tf318)
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genozip tamtools
2 1
149 3
- -
9.1 10.0
15 days ago over 7 years ago
C Python
GNU General Public License v3.0 or later GNU General Public License v3.0 only
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.

genozip

Posts with mentions or reviews of genozip. We have used some of these posts to build our list of alternatives and similar projects. The last one was on 2023-01-09.

tamtools

Posts with mentions or reviews of tamtools. We have used some of these posts to build our list of alternatives and similar projects. The last one was on 2023-01-09.
  • We're wasting money by only supporting gzip for raw DNA files
    6 projects | news.ycombinator.com | 9 Jan 2023
    A few years ago I built some tools https://github.com/tf318/tamtools to store alignments against two different reference assemblies in an efficient way (taking advantage of the fact that the majority of each alignment to different assemblies would in fact be the same, just shifted in position).

    The intent was to enhance this to store alignments against multiple references as new references are published, and probably to rewrite in Rust or C rather than the initial Python effort.

    In retrospect I would be interested to know whether this domain-specific compression effort, with zstd to the resulting "hybrid" alignment, would be more efficient than just letting zstd do its own thing with a full set of individual alignments against the different references.

What are some alternatives?

When comparing genozip and tamtools you can also consider the following projects:

htslib - C library for high-throughput sequencing data formats

zstd - Zstandard - Fast real-time compression algorithm

BEETL - BEETL

community - An open community with an interest in developing and using new technologies for tensor data storage.

snappy - Helps you browse through and interpret your genotype data

sambamba - Tools for working with SAM/BAM data

Hail - Cloud-native genomic dataframes and batch computing

genozip vs htslib tamtools vs zstd genozip vs BEETL tamtools vs community genozip vs snappy tamtools vs BEETL genozip vs sambamba genozip vs zstd genozip vs community genozip vs Hail