Viewing profile — donovanr

Yes! Units are up to you (with some constraints)! Physicists do this in practice a lot: https://en.wikipedia.org/wiki/Natural_units

Yes, this. A lot of work in this field is missing from that timeline. Just circa 2010-2020, Les Loew's VCell 3D PDE approaches, Faeder et al.'s BioNetGen / ODE work, Luthey-Schulte…

it's uncreative/tired but at least to the point. Too many papers are confused / opaque agglomerations of a year's worth of research shoehorned into a paper. At least with these you…

This rings _so_ true. While I was in grad school I got bored sitting behind a computer all day, and my wife and I decided to build a tiny house on a trailer as a way of venting our…

Allen Institute for Cell Science | ONSITE Seattle | Full-time | software engineer / ML / computer vision | https://alleninstitute.org/ The modeling team at the Allen institute for …

Allen Institute for Cell Science | software engineer / ML / computer vision | ONSITE Seattle | Full-time The modeling team at the Allen institute for Cell Science is hiring for two…

Very nice. It might be worth worth weighting each data point in proportion to the population it represents.

1. All of the above. The label free tool in particular gives you such a big free lunch at the microscope that the combination of it and good visualization has the potential to mass…

That's at least close to true. It might be better to think of it as a smoothed "segmentation" of a 3D image, i.e. some algorithm decided what pixels are officially part of e.g. the…

Characterizing cellular variation is exactly what we're interested in, e.g when and why are the mitts clustered around the nuclear vs not. Lots of images in our data have them pack…

not sure about specific plans but it's definitely something we're interested in

just saw this; I'm part of the computational modeling team that worked on this -- can try to field any questions or find more qualified people to do so.

would be happy to, but I don't see your email there -- mine's in my profile (I think!) if you'd like to get in touch

Some feedback on the quiz: - a few of the questions were very good, and either spoke to key high level concepts, or were specific while being language agnostic. (e.g which one of t…

specious extrapolations aside, the plot itself is deceptive -- exponential growth in a log-linear plot should be a straight line, not one accelerating upward super-exponentially.

Sedgewick's 1978 paper[0] on implementing quicksort has some interesting hand optimizations of the assembly code -- loop rotating, unrolling, etc. I wonder if modern compilers do t…

Zee's QFT in a Nutshell is a very readable, high-level view of what's going on in QFT. Griffiths' book is his one text I haven't read, but I love his others so much I can't help bu…

Right, but it's the 'every once in a while" part that I wonder about, i.e. the variance of that distribution. Maybe you could argue that since the Maxwell-Boltzmann distribution is…

I've always been curious: I understand that h.nu from cell phone radiation isn't big enough to ionize (say) DNA, but since the molecules in our body are in thermal equilibrium, can…

I enjoyed reading this as written rather than as (I assume) intended: "The enormity of defining any job they want can be overwhelming..."

These results seem unconvincing without any error bars / confidence intervals, or even a mention of the number of replicates performed (though the downloadable data set seems to in…

Have to rep for my favorite math text that pretty much no one else has heard of: Ray Mayer's Introduction to Analysis [1]. It's rigorous, compellingly readable, and accessible to c…

I work at the cellular/molecular scales in a computational biology program; musculoskeletal stuff can often find a home in bioengineering departments. Not sure how much insight I c…

I am a 5th year computational biology student, and have yet to take any real coursework in theoretical biology, despite the fact that most of what I do could be broadly classified …