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ben

@clearnoise.bsky.social

Scientist Formerly at Pitt Med, HHMI Janelia and Umass Med, but have jumped head first from the ivory tower cryo-Electron Microscopy && HPC aficionado OpenAccess (mostly) Free Software

53 Followers  |  65 Following  |  35 Posts  |  Joined: 19.03.2024  |  1.8109

Latest posts by clearnoise.bsky.social on Bluesky

I mostly read non-fiction, but am pumped to have received the bicentennial edition of the Brothers Karamazov. Although it is one of my favorite books, it’s been so long, I cant say why.

Of to read-iscover : )

2/2

17.05.2024 20:49 β€” πŸ‘ 0    πŸ” 0    πŸ’¬ 0    πŸ“Œ 0

One surprise I’ve encountered while watching the internet drown in #LLM garbage, is a renewed appreciation for books.

I’ve always maintained a fairly well stocked library; but now I’m noticing that I take more time to relish the flow of thought, unique and flavored by the given author.

1/2

17.05.2024 20:48 β€” πŸ‘ 0    πŸ” 0    πŸ’¬ 1    πŸ“Œ 0

unfortunately, this one’s not on scihub

21.04.2024 18:13 β€” πŸ‘ 0    πŸ” 0    πŸ’¬ 0    πŸ“Œ 0

oh yikes! would you share a link or paper title please?

20.04.2024 12:48 β€” πŸ‘ 0    πŸ” 0    πŸ’¬ 1    πŸ“Œ 0

sounds better than using β€œhallucinated” and the scare quotes around β€œstructure” I used, but same vibe here

20.04.2024 02:15 β€” πŸ‘ 1    πŸ” 0    πŸ’¬ 1    πŸ“Œ 0

so what would you say as the reviewer?

20.04.2024 01:51 β€” πŸ‘ 0    πŸ” 0    πŸ’¬ 1    πŸ“Œ 0

have you seen anyone use a reslog plot or similar to asses fictional results? I assume the trend from 10k to 10M particles is not the same for real vs hallucinated β€œstructures”

20.04.2024 01:28 β€” πŸ‘ 0    πŸ” 0    πŸ’¬ 1    πŸ“Œ 0

Reminder the switch in terminology from "refereeing" to "peer review" in the 1970s was partly due to concern about government interference journals.plos.org/plosbiology/...

17.04.2024 22:26 β€” πŸ‘ 4    πŸ” 3    πŸ’¬ 1    πŸ“Œ 0

Friendly reminder that if you live or have a business in RI your state taxes are not due until

July 15

And if you are in Providence, Kent or Washington county, the same applies for federal taxes.

#taxday #taxes #RI #irs

15.04.2024 20:05 β€” πŸ‘ 0    πŸ” 0    πŸ’¬ 0    πŸ“Œ 0

Can we start a rumor that chatGPT uses β€œelucidate” at a high rate and it is a trigger for review of a.i. gen content?

#academia #academicchatter

11.04.2024 01:28 β€” πŸ‘ 0    πŸ” 0    πŸ’¬ 0    πŸ“Œ 0

#cryoEM scientist 10 or more years ago - β€œI have to write an entire software package to do my research, okay then!”

Kids these days - β€œI have to install a new package and follow the simple il instructions someone took time to share on a mailing list?! How unfair!”

09.04.2024 14:53 β€” πŸ‘ 2    πŸ” 1    πŸ’¬ 0    πŸ“Œ 0

this is a fun experiment - looking forward to updates!

06.04.2024 12:38 β€” πŸ‘ 1    πŸ” 0    πŸ’¬ 0    πŸ“Œ 0
Preview
β€˜Lavender’: The AI machine directing Israel’s bombing spree in Gaza The Israeli army has marked tens of thousands of Gazans as suspects for assassination, using an AI targeting system with little human oversight and a permissive policy for casualties, +972 and Local C...

that’s not what i want my electrons doing πŸ₯Ί

www.972mag.com/lavender-ai-...

06.04.2024 01:31 β€” πŸ‘ 0    πŸ” 0    πŸ’¬ 0    πŸ“Œ 0

Brains do not come with gdb stubs. All we can do is printf debugging (aka talk about stuff).

HT: derf

04.04.2024 10:23 β€” πŸ‘ 0    πŸ” 0    πŸ’¬ 0    πŸ“Œ 0

oi, so much green already!!

02.04.2024 10:53 β€” πŸ‘ 1    πŸ” 0    πŸ’¬ 1    πŸ“Œ 0

also .. great idea for a kids book. Coyote and pitty become best friends, public has to acknowledge both are cute and misunderstood after watching happy hijinx.

02.04.2024 10:52 β€” πŸ‘ 0    πŸ” 0    πŸ’¬ 0    πŸ“Œ 0

Just chased a coyote off b/c I was worried about my … pitbull. Glad it was a wiley coyote and not one that decided to ask

β€œoh yeah, you, the guy with the half rotten stick in your hand, what are yooouuu gonna do?”

#wildlife #coyote

02.04.2024 10:52 β€” πŸ‘ 0    πŸ” 0    πŸ’¬ 1    πŸ“Œ 0
Preview
Atmospheric observations in China show rise in emissions of a potent greenhouse gas To achieve the aspirational goal of the Paris Agreement on climate changeβ€”limiting the increase in global average surface temperature to 1.5 degrees Celsius above preindustrial levelsβ€”will require ...

Please don’t tip over your TEMs.

#cryoEM

phys.org/news/2024-03...

30.03.2024 00:44 β€” πŸ‘ 1    πŸ” 0    πŸ’¬ 0    πŸ“Œ 0
Fish Sounds: Do fish talk to each other? | Earth Unplugged
Did you know fish chirp, crackle and whoop?! Hear why fish make these surprising sounds as Professor Steve Simpson reveals how technology is uncovering a hidden world of communication on our coral reefs. Subscribe: http://bit.ly/SubscribeToEarthUnplugged Animal Slow Motion: http://bit.ly/EarthUnpluggedSlowMotionTimelapse Expeditions: http://bit.ly/EarthUnpluggedExpeditionsAndLocationFilms Big Questions with Maddie: http://bit.ly/BigQuestionsWithMaddieMoate Wilderness Sessions: http://bit.ly/WildernessSessionsFilms Ocean X Media are a team of scientists, explorers and filmmakers driven to discover what lies beneath the waves and to document untold ocean stories. You can find out more here: http://www.oceanx.org Welcome to Earth Unplugged! We make films about the incredible natural world, we investigate the conundrums, quirks and beautiful science of our amazing planet. Want to share your views with the team behind BBC Earth and win prizes? Join our BBC Studios Voice: https://www.bbcstudiosvoice.com/register This is a channel from BBC Studios who help fund new BBC programmes. Service information and feedback: http://bbcworldwide.com/vod-feedback--contact-details.aspx Fish Sounds: Do fish talk to each other? | Earth Unplugged

Diving Grand Cayman in a week and can’t wait to listen a little closer : )

HT Albert Cardona

#ScienceOutreach #Fish #scuba

youtu.be/POITH02VVrw?...

29.03.2024 15:16 β€” πŸ‘ 0    πŸ” 0    πŸ’¬ 0    πŸ“Œ 0

I was just bemoaning a similar feeling. It’s so easy to overlook many successes in the face of a recent failure. Thanks for sharing; it’s good to remember we’re all doing the same song and dance!

28.03.2024 18:57 β€” πŸ‘ 1    πŸ” 0    πŸ’¬ 0    πŸ“Œ 0

Update:

Trying a reverse calendar put spread (which sounds more like a fun sex act than a derivatives strategy)

27.03.2024 21:11 β€” πŸ‘ 0    πŸ” 0    πŸ’¬ 1    πŸ“Œ 0

FWIW, i tried to short DJT but there were no available shares at $70 on IBKR

27.03.2024 16:02 β€” πŸ‘ 0    πŸ” 0    πŸ’¬ 1    πŸ“Œ 0

An important reminder for all of us freelancers:

If I fix your #gpu #code in an hour, that’s because I’ve spent 13 years learning how to do it in an hour.

You owe me for the years, not the hours.

#consulting

26.03.2024 15:39 β€” πŸ‘ 4    πŸ” 0    πŸ’¬ 1    πŸ“Œ 0

When doing subtomo PCA in #cryoET, the MW bias can be seen in the latent space mapping

If you can see the bias in the eigenvectors, it sure seems like a directional FSC with the e-vectors could allow you to ignore or regularize them prior to projecting feature vectors.

Anyone in #TeamTomo tried?

25.03.2024 12:57 β€” πŸ‘ 1    πŸ” 1    πŸ’¬ 0    πŸ“Œ 0

In explaining my research/funding model to some tenured professors recently, one of the more interesting replies was -

β€œOh, so you’re kinda like a research mercenary?”

In so far as I left a broken #academic system to do what I’m *really* good at

AND πŸ‘ get πŸ‘ paid πŸ‘

I guess so

#PostdocExodus

25.03.2024 12:43 β€” πŸ‘ 1    πŸ” 0    πŸ’¬ 0    πŸ“Œ 0

I wonder how many T-mobile wifi customers follow the instructions to put their router by a window, but don’t change or cover up the admin passwords printed on the router?

#infosec #tmobile

22.03.2024 19:10 β€” πŸ‘ 0    πŸ” 0    πŸ’¬ 0    πŸ“Œ 0

… but factoring in the peripherals a node of A5000 was less cost efficient than A6000 b/c they have the same footprint in a datacenter but yield lower return (assuming you keep them busy all the time)

22.03.2024 16:29 β€” πŸ‘ 0    πŸ” 0    πŸ’¬ 0    πŸ“Œ 0

Are they?

Do you relative to A6000 or the consumer cards? In my tests, A6000 performed a bit slower than a rtx 3090 on a (template matching) task given the same wattage.

I didn’t compare a5000 to consumer, but to A6000 they were ~ linear in scaling cost vs performance at the card level … cont

22.03.2024 16:27 β€” πŸ‘ 0    πŸ” 0    πŸ’¬ 1    πŸ“Œ 0

3/3

πŸ”² How do I figure the cost in not upgrading but running my hardware > 50% of the time (my time and effort to schedule)?

πŸ”² What is the env. cost in manuf./disposing of a gpu?

πŸ”² The ⚑️ savings ignores all supporting hardware.

*my avg in RI USA is ~$0.25 when all charges/taxes etc considered

22.03.2024 11:59 β€” πŸ‘ 0    πŸ” 0    πŸ’¬ 0    πŸ“Œ 0

2/3

An #nvidia rtx 4090 does 1.5x the math than a 3090 at the same wattage.

So upgrading saves $100/year ⚑️, but cost ~$2000

Of course there are other costs to figure, but it gets harder really quick…

22.03.2024 11:54 β€” πŸ‘ 0    πŸ” 0    πŸ’¬ 2    πŸ“Œ 0

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