A cranky biologist who means well. My hobbies include long walks off short piers and anything science related.

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Joined 1 year ago
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Cake day: June 25th, 2023

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  • Back when Perl was the language of choice for bioinformatics, I found a huge performance boost pre-processing large (~1Tb) text files using built in unix tools like sed and awk with regex. So while it might take me a full hour to peck out the correct incantation, the task would then run in an hour, compared to four hours or more for the same task using Perl.

    So many pipes…




  • It’s great as a mental prosthetic. When I am tackling a new complex topic like say a new cloud platform I’m learning, i can test my understanding of the implications of a change to the console settings. I tell it what i think and ask it to check my understanding. Really speeds up my learning, but I don’t rely on it exclusively. I will write my own dang emails, thank you.










  • Not much love here for the Pi Zero W. I love them for being so flipping cute. I have a couple I use when I am learning a new system admin tool or service and I need to be able to let it run undisturbed to observe stability and function.

    Lately I am learning MQTT so am using one as a broker to manage some homemade smart devices.

    If I can ever find one in stock, i want a couple of Zero 2 for similar projects that would benefit from the extra oomph.





  • Thank you for chiming in on the slightly spurious billing claim. Yes, billing and charge codes are woven throughout EHR systems but that’s just because everything we do in health care costs time/money. It’s as much about cost tracking as cost recovery.

    We measure what we treasure however and if you look at the structure of any EHR, they are steadfastly patient-centric. Billing is ubiquitous but it is more like tinsel on a Christmas tree, sort of draped lightly over and connecting everything. Pick off the tinsel and the core patient care features are unaffected.

    It will take years to see the effects in large scale but I like the features that allow patients to see their test results the minute they are released. As a patient myself, it gives me a feeling of having a bit more ownership of my own healthcare.

    I was intrigued to learn recently that better EHR use a patients highest education level to tailor the way genomic test results are presented in the patient-viewable chart. The same results are reported to anyone but apparently patients with higher education levels will take positive actions when provided with sufficient depth of background information. Conversely, too much background info can be off-putting for others and reduces proactive behavior changes.

    I get it, it’s really easy to be cynical about health care especially in the USA where it is kinda bad in many ways for no good reason. But at least pick the right things to complain about.