Genozip
Lossless compression for genomic files
Offered by GenStore, reseller partner for Portugal and Europe
Data formatsFASTQ, BAM, SAM, CRAM, VCF, BCF, FASTA, GFF, GVF, GTF, BED, TRACK, 23andMe, Illumina LOC files
Compression typeLossless/Lossy
Academic researchDiscounted License
Commercial useLicense required
Evaluation30 days, free
Overview
Genozip is a compressor built for genomic file formats. Archives of FASTQ, BAM, VCF and other genetic data files usually take far less space than with gzip, and every file is restored exactly as it was. It suits sequencing labs, hospitals, biobanks and research groups that keep large archives for years.
Compression ratio
| File format | Comparison against | Relative size of file compressed by genozip |
|---|---|---|
| FASTQ/FASTA | fastq.gz | 20-50% (up to 5 times smaller) |
| SAM / BAM / CRAM | .bam | 8-40% (up to 12 times smaller) |
| VCF | vcf.gz | 10-35% (up to 10 times smaller) |
| GFF/GVF/GTF | .gff3 | 15% (6.6 times smaller) |
Additional features
Reference-based mode
Match reads against a reference genome for noticeably smaller files.
Co-compression of paired-end FASTQ files
Compress R1 and R2 jointly, typically 10 to 15 percent smaller.
Deep: BAM + FASTQ
Store a BAM with its source FASTQs in one file and restore every original.
Lossy compression
While Genozip is primarily a lossless compressor, there is available lossy compression as well
Quick start
genozip --reference ref.fa.gz sample_R1.fq.gz
genozip --pair --reference ref.fa.gz sample_R1.gz sample_R2.fq.gz
genozip --deep --reference ref.fa.gz sample.bam sample_R1.fq.gz
genozip sample_R1.fq.genozipLearn more at genozip official website