
Asst Prof @NYU_CNS + Project Leader @FlatironCCN studying Computational + Statistical Neuroscience.
New York, NY
Joined July 2011
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Pinned Tweet
Here is a recording of my talk @CogCompNeuro last week on quantifying similarity in neural recordings
Very much enjoyed the Keynote + Tutorial format for the conference. Links to our tutorial notebook below 👇
youtube.com/live/-xmLMWC2YlI…
Alex Williams retweeted
Being able to record from large neuron populations has led to myriad methods to compare them, writes Alex Williams @ItsNeuronal. But we still grapple with how to convert measures of likeness into better mechanistic understanding.
thetransmitter.org/neural-dy…
Alex Williams retweeted
Great blog post from @ItsNeuronal on the interpretation of Log-Likelihood Ratios for model comparison, including a (new to me!) result on how to obtain a significance threshold for declaring one model better than another:
neurostatsblog.github.io/202…
Alex Williams retweeted
Neural dynamics are complex, varying in time and across experimental conditions.
🎉 Excited to share our #NeurIPS2025 work: we introduce Conditionally Linear Dynamical Systems (CLDS) as an interpretable and flexible model of neural dynamics.
🧵[1/9]
Alex Williams retweeted
Congrats to our very own Ipshita Zutshi on being awarded the Peter & Patricia Gruber International Research Award in Neuroscience!! #SfN25
Alex Williams retweeted
Senator Schumer is no longer effective and should be replaced. If you can’t lead the fight to stop healthcare premiums from skyrocketing for Americans, what will you fight for?
Alex Williams retweeted
The application for a research fellowship at the Flatiron Institute in the Center for Computational Math is now live! This includes positions for ML and stats.
The deadline is Dec 1. Links below with more details.
Alex Williams retweeted
⏳ Deadline is next Friday! Apply now to join our #SfN25 workshop on pynapple & nemos. Learn to analyze & model neural data using software developed at @FlatironInst. Accommodations + meals included! 👉 neurorse.flatironinstitute.o…
Alex Williams retweeted
Excited to announce that our paper on "Comparing noisy neural population dynamics using optimal transport distances" has been selected for an oral presentation in #ICLR2025 (1.8% top papers). Check the thread for paper details (0/n).
Presentation info: iclr.cc/virtual/2025/oral/31….
Alex Williams retweeted
Excited to share our JOSS paper (joss.theoj.org/papers/10.211…) and code (github.com/probml/dynamax)! Special thanks to our reviewers — Dynamax v1.0 is much improved thanks to their feedback!
I am pleased to announce that the paper on our Dynamax Jax library for SSMs is now available at joss.theoj.org/papers/10.211….
Code is at github.com/probml/dynamax/.
Joint work with @scott_linderman @grrddm @petergchang @karalleyna @GilesHD @mxinglongli
Alex Williams retweeted
Thousands of UAW members are international workers who conduct critical research to advance lifesaving treatments for diseases like cancer, Alzheimer’s, and more. Hear from international scholars across the country why they're taking action on 4/8 to #KillTheCuts.
Alex Williams retweeted
UAW Region 4 CAP mobilization happening TODAY: members across the region are calling key Senators and Congresspeople to demand "No Cuts to NIH Funding!"
An attack on one of our members is an attack on all of us!
Alex Williams retweeted
Thank you to everyone who joined us for our first and second Pynapple & @nemos_neuro workshops of the year at @FlatironCCN , NYC! Stay tuned for future event announcements. #EastCoast
Alex Williams retweeted
To save some suspense, industry is not doing a lot of curiosity driven fundamental research.
Alex Williams retweeted
🧵 Many “hot takes” about the reduction of @NIH indirect grant costs to 15%.
Let’s lay out the facts about the university grant management process & accounting. And then use this to project likely short and longer term impacts of the policy.
Alex Williams retweeted
It seems few people know what an “indirect cost” is or why it has to be 40-60%.
The reason the government forced universities to raise their indirect costs up to (typically) 40-60% was to force a huge amount of regulations on the universities while also minimizing the bookkeeping to comply with those regulations. This includes the work by contract managers, compliance lawyers, accountants, safety management, etc., who are required by the government per the terms of the contract. If universities had to allocate all those categories of labor to each contract hour-by-hour it would require too much bookkeeping, which would waste money. (I’m setting aside for now the question of whether or how much the regulations are wasting money and only discussing how you bookkeep the effort to comply with the regulations.)
So to save money, while also requiring universities to do these types of work, the government requires universities to roll those categories of labor into “cost pools” that must be allocated as a percent of the technical work in each of the contracts. While the actual “overhead” might be only 15%, these pooled labor charges that are required by the government are typically much more.
Second, the government doesn’t allow the universities to figure out their own indirect rates. These rates are determined by the federal government through audits every couple of years. The government then sends a document telling the university what rate to use for its cost pools. For example, the University of Colorado was told by the DHHS to use 54% (colorado.edu/controller/site…) and U. Nebraska was told by DHHS to use 55.5% (uofnelincoln.sharepoint.com/…). 40-60% is not only reasonable to fulfill the terms of the contract, it is the rate that the government tells the university it can charge for all the work the government requires the university to do.
So if the government wants to reduce the indirect rate to 15%, then it needs to do one of these two things:
Either
(A) eliminate all the federal regulations that force the universities to do those categories of work (compliance, accounting, management, safety management, tracking harmful chemicals, etc.)
Or,
(B) stop requiring universities to pool those real costs into the “indirect cost” category and allow universities to include them in the “direct costs” of the contract.
If the government chooses (A), then the safety rails have been entirely removed. (Even if the government lowers the regulations without entirely eliminating them, the costs they impose will still be real costs that probably come out to more than 15%.)
Or, if it chooses (B), then the direct costs will go way up and research will actually be less efficient because all the bookkeeping, not more efficient.
But if the government caps the indirect rate at 15% without doing either (A) or (B), then it will be impossible to do research for the federal government without going bankrupt. That’s the worst possible choice. It will kill research in the US. Is that what we want?
I can explain it for you but I can’t understand it for you. It’s up to the reader not to be ignorant.
Alex Williams retweeted
Clearly Ivy Leagues are used here as examples to rile up conservatives, but rates are higher at places like Seattle Children's Hospital (95%) or Dana Farber Cancer Institute (75%) - underscoring how cutting indirect funds will directly impact pediatric and cancer care.
Last year, $9B of the $35B that the National Institutes of Health (NIH) granted for research was used for administrative overhead, what is known as “indirect costs.” Today, NIH lowered the maximum indirect cost rate research institutions can charge the government to 15%, above what many major foundations allow and much lower than the 60%+ that some institutions charge the government today. This change will save more than $4B a year effective immediately.
Alex Williams retweeted
Imagine if academia were given 500B for AI research... it would be absolutely revolutionary compared to one company stockpiling GPUs. That's like 100 CMUs. For 0.01% of that money the right lab could profoundly advance the field.
I love assuming things are accurate. It has never made me look foolish even once.
Replying to @mike_brooks @NIH
I said “assuming this is accurate” and asked for clarification/community notes took care of it. I’m in favor of a detailed audit for sake of directing more funds to actual research… and looks like we’re getting it.



























