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Is it feasible to do any meaningful work in this field without joining a team? (e.g. as a solo hobbyist/entrepreneur)



If you have a software background and can get some basic domain knowledge, there's lots of open source projects that could use your contribution.

Doing fundamental reseach is a taller order. But lots of software, tools, pipelines etc need maintainers, optimizations...


Which projects? That seems like a good place to start.


I contribute to Nextflow core (https://nf-co.re/) It's more of a collection of pipelines than traditional software, but there are users all around the world and a good community.

Most of the packages on bioconda (https://bioconda.github.io/) are open source. But you probably want to find a sub-field that interests you most before finding a project.

In grad school, we also had an ex-google software engineer volunteer with us one day a week. It was very impactful for many members of the lab to learn good engineering practices, and it wasn't at all like the sentiment others in this thread are expressing where engineers were "janitors".


https://github.com/scverse But this is mostly about transriptomics (RNA), not genomics.


Difficult but possible. For example, Robert Edgar [1] works alone and is one of the most productive developers in this field.

[1] http://drive5.com


I worked with Bob some ~20 years ago at Berkeley. he showed up one day to check out the seminars and see if he could "help out" after having sold his database company to Intel. he said he'd been trained as a physics guy in the 80s but there were no real jobs so he started a software company instead. He joined my advisor's group (it helped a lot, because at the time most journals wouldn't publish a paper submitted from a home address).

He proceeded to completely understand hidden markov models and protein sequence alignment and was immediately hacking improvements to HMMER. However, Sean Eddy couldn't understand his optimizations (Sean has to know how HMMER works at all times) and so Bob went off and made his own tools like MUSCLE.

One of the reasons he can do this is, well, he's a programmer/math genius, and the other reason is that HMMs and protein alignments are a fairly well understood and programmable thing these days.

Still blows me away we train up all these people to be scientists when there are no jobs for them in that role.


I don't work in this space anymore, but just want to say kseq (and the rest of klib) is such an awesome time saver. Thank you.




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