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I work in genomics, this is very true. I know of some modernization efforts, ie by companies working with new file formats, like GenomSys [0] with mpeg-genomics
by teekert 4y ago
I work in genomics, this is very true. I know of some modernization efforts, ie by companies working with new file formats, like GenomSys [0] with mpeg-genomics [1].
It feels like it’s going very slowly though. The field just really depends on their Unix philosophy tools, there is a lot of gzipped text files that are piped through bash scripts and tool like awk and grep. It works, mostly, but there is a lot of weirdness.
[0] https://genomsys.com/ https://genomsys.com/
[1] https://mpeg-g.org/ https://mpeg-g.org/
- tonto 4y agompeg-g to me is probably bad for the field. sam/bam/cram is the way of the present and mpeg-g offers little over these formats and is patent encumbered. xref samtools developer blog http://datageekdom.blogspot.com/2018/09/mpeg-g-ugly.html?m=1 http://datageekdom.blogspot.com/2018/09/mpeg-g-ugly.html?m=1
- teekert 4y agoHmm I agree with James. I bring the same points to my employer actually, they sort of listen but they like IP.