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the oldest indexing compressor ? #119

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maximilianh opened this issue Jul 5, 2024 · 2 comments
Open

the oldest indexing compressor ? #119

maximilianh opened this issue Jul 5, 2024 · 2 comments

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@maximilianh
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Hi Dave,

about the "similar tools" section on this page, you may want to add "pgzip" ?
https://github.com/vasi/pixz

in genomics, the indexing compressor pgzip has been used for around 15 years. Millions of files on the internet use it, it allows streaming of sequencing reads and variant files in vcf.gz so you can load only a part of the file over HTTP, only the one for the chromosome location that you're currently viewing. Browsers like UCSC, Ensembl or NCBI support this format, as well as standalone apps like IGV. Of the indexing compressors, pgzip may be the one with the largest adoption and oldest history?

@vasi
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vasi commented Jul 6, 2024

There's a few things called "pgzip" out there if I google. Which one did you have in mind?

@maximilianh
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maximilianh commented Jul 6, 2024 via email

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