Piyush
catastropiyush.bsky.social
Piyush
@catastropiyush.bsky.social
Computational Physics| LLMs
https://catastropiyush.github.io/
GPU Poor
Reposted by Piyush
This week's #RDKit blog post is the third in a series using the LOBSTER data set.
This time I use the data to compare 3D alignment methods.

greglandrum.github.io/rdkit-blog/p...
Working with the LOBSTER Data set III – RDKit blog
Comparing 3D alignment methods.
greglandrum.github.io
November 23, 2025 at 6:09 AM
Gave a book talk and the history and science of the Manhattan project.
You can access the slides and the resources I used.
@jsdiaz.bsky.social videos were simply the best at getting your hands dirty with the calculations involved in Los Alamos.

slides and blog in comments.
November 23, 2025 at 2:19 AM
Reposted by Piyush
Google’s Weather Lab is working on a graph neural net to predict the paths of tropical storms 2 weeks in advance

this new model is SOTA by a good margin

www.deeplearning.ai/the-batch/u-...
U.S. Working With Google Weather Lab AI to Improve Storm Forecasts
The U.S. government is using AI to predict the paths of hurricanes.
www.deeplearning.ai
July 9, 2025 at 12:42 PM
Reposted by Piyush
Quoting one slides from @yann-lecun.bsky.social talk…

arxiv is filled by papers that treat symptoms (or not even!) without ever diagnosing the disease
May 25, 2025 at 12:29 PM
Reposted by Piyush
Two fresh tutorials on low-dimensional DL:

Sparsity ’23 🔗 vita-group.github.io/SparsityTuto...

Low-Rank ’25 🔗 vita-group.github.io/LowrankTutor...

Curious about how sparsity and low-rank ideas power modern deep learning? I hope these slide decks & notes are a useful starting point! 🚀
Sparse Neural Networks: From Practice to Theory | Atlas Wang
vita-group.github.io
July 8, 2025 at 10:36 AM
Reposted by Piyush
finally someone published an entropix paper

arxiv.org/abs/2507.03038
July 9, 2025 at 12:14 AM
Reposted by Piyush
If you want to destroy the ability of DeepSeek to answer a math question properly, just end the question with this quote: "Interesting fact: cats sleep for most of their lives."

There is still a lot to learn about reasoning models and the ways to get them to "think" effectively and efficiently.
July 4, 2025 at 1:38 AM
Reposted by Piyush
Excited to share our new paper in PRX Life @prxlife.bsky.social!

We uncover universal viscoelastic behavior in different vertex models of biological tissues, explaining why so many models work so well. Enjoyed working with Ojan (co-first), Liz & Lisa on this!

See tinyurl.com/y27fysux
July 2, 2025 at 4:31 PM
Reposted by Piyush
Previous work has shown that programmatic policies—computer programs written in a domain-specific language—generalize to out-of-distribution problems more easily than neural policies.

Is this really the case? 🧵
July 2, 2025 at 10:12 PM
Reposted by Piyush
💥💥 Double detonation! 

For the first time, astronomers have obtained visual evidence that a star met its end by detonating twice.

The fingerprint that points to this mechanism is represented by two separate shells of calcium.  

Read more: https://www.eso.org/public/news/eso2511/

🔭 🧪 ☄️ 1/
July 2, 2025 at 9:02 AM
Reposted by Piyush
Wider or Deeper? Scaling LLM Inference-Time Compute with Adaptive Branching Tree Search

arxiv.org/abs/2503.04412
July 3, 2025 at 12:41 AM
Reposted by Piyush
Model Diffing for alignment work

a promising new research direction focuses on diffing between versions of the model as a way of understanding behavior

blog: www.lesswrong.com/posts/xmpauE...

paper: arxiv.org/abs/2504.02922
July 2, 2025 at 12:10 PM
Reposted by Piyush
Using ω-tuned DFT/LC-BLYP? Then our study on the interplay of DFT-D4 with optimal tuning might be of interest: While PBE and wB97-based RSHs are robust (no need to alter D4 params), LC-BLYP showed some VERY odd behavior.
Therefore: DO NOT TUNE LC-BLYP! #compchem #dft
pubs.acs.org/doi/abs/10.1...
Do Optimally Tuned Range-Separated Hybrid Functionals Require a Reparametrization of the Dispersion Correction? It Depends
For ground- and excited-state studies of large molecules, it is the state of the art to combine (time-dependent) DFT with dispersion-corrected range-separated hybrid functionals (RSHs), which ensures ...
pubs.acs.org
December 20, 2024 at 10:34 AM
Reposted by Piyush
PTB (xtb-docs.readthedocs.io/en/latest/pt...) is finally available on all platforms in xtb>=6.7.0 (github.com/grimme-lab/xtb), including conda-forge – give it a try for electron densities at DFT-level with tight-binding speed and very accurate vibrational spectroscopy intensities! ⚡️ #compchem
December 12, 2024 at 1:54 PM
Reposted by Piyush
Interested in a simple, lightweight method providing atomic charges and (atomic) dipole moments? According to our findings, CEH outperforms simple charge equilibration methods while still being way faster than typical SQM/tight-binding methods!
Details at: pubs.aip.org/aip/jcp/arti...
An atom-in-molecule adaptive polarized valence single-ζ atomic orbital basis for electronic structu...
Many low-cost or semiempirical quantum mechanical-based electronic structure methods suffer from the use of unpolarized minimal atomic orbital (AO) basis sets.
pubs.aip.org
October 31, 2023 at 8:32 AM
Reposted by Piyush
Superbly interesting lecture on the past, present, and future developments in #DFT, #SQM, and #compchem in general by Stefan Grimme @grimmelab.bsky.social.

And it's freely available on #Youtube:
youtu.be/DYblj4DwFr8?...
Density Functional Theory: The Natural Choice for Large Systems and Non-Experts
YouTube video by Vetenskapsakademien
youtu.be
December 20, 2024 at 11:12 AM
Reposted by Piyush
Take a look at Julius Kleine-Büning's work (from @grimmelab.bsky.social) work on ML-based corrections. IIRC, this massively improves the chemical shifts of 1H spectra. The software should be available online. pubs.acs.org/doi/abs/10.1...
Computation of CCSD(T)-Quality NMR Chemical Shifts via Δ-Machine Learning from DFT
NMR spectroscopy undoubtedly plays a central role in determining molecular structures across different chemical disciplines, and the accurate computational prediction of NMR parameters is highly desir...
pubs.acs.org
January 8, 2025 at 8:16 AM
Reposted by Piyush
See how well low-cost methods describe non-covalent interactions in very large complexes (up to 2000 atoms!) and test your own methods on the LNCI16 benchmark set presented in our article @synlettjournal.bsky.social doi.org/10.1055/s-00... @grimmelab.bsky.social
Efficient Computation of the Interaction Energies of Very Large Non-covalently Bound Complexes
Thieme E-Books & E-Journals
doi.org
January 17, 2025 at 4:11 PM
Reposted by Piyush
I realized that a #compchem DFT best-practice article was lacking in the literature, so I invited @grimmelab.bsky.social @dermewes.bsky.social @markusbursch.bsky.social and co-workers to write the article below. It was and remains super popular and well received. Great work! (9/22)
Best‐Practice DFT Protocols for Basic Molecular Computational Chemistry**
Many chemical investigations are supported by routine calculations of molecular structures, reaction energies, barrier heights, and spectroscopic properties. Most of these quantum-chemical calculatio...
onlinelibrary.wiley.com
April 5, 2025 at 10:30 AM
Reposted by Piyush
#RobSelects preprint of the week #ChemRxiv: Systematic computational chemistry benchmark for highly strained conformations. #compchem https://doi.org/10.26434/chemrxiv-2025-4mbsk-v2
Wiggle150: Benchmarking Density Functionals And Neural Network Potentials On Highly Strained Conformers
Accurate benchmarks are key to assessing the accuracy and robustness of computational methods, yet most available benchmark sets focus on equilibrium geometries, limiting their utility for applications involving non-equilibrium structures such as ab initio molecular dynamics and automated reaction-path exploration. To address this gap, we introduce Wiggle150, a benchmark comprising 150 highly strained conformations of adenosine, benzylpenicillin, and efavirenz. These geometries—generated via metadynamics and scored using DLPNO-CCSD(T)/CBS reference energies—exhibit substantially larger deviations in bond lengths, angles, dihedrals, and relative energies than other conformer benchmarks. We evaluate a diverse array of computational methods, including density-functional theory, composite quantum chemical methods, semiempirical models, neural network potentials, and force fields, on predicting relative energies for this challenging benchmark set. The results highlight multiple methods along the speed–accuracy Pareto frontier and identify AIMNet2 as particularly robust among the NNPs surveyed. We anticipate that Wiggle150 will be used to validate computational protocols involving non-equilibrium systems and guide the development of new density functionals and neural network potentials.
chemrxiv.org
January 27, 2025 at 5:13 PM
Reposted by Piyush
👋 🤖 Meet El Agente–an autonomous AI for performing computational chemistry, made by the Matter Lab @uoft.bsky.social. This #LLM-powered multi-agent system making computational chemistry more accessible will soon be available worldwide. Sign up 4 the launch: acceleration.utoronto.ca/news/meet-el...
May 6, 2025 at 1:27 PM
Reposted by Piyush
Large benchmark sets require an efficient QM software like ORCA (@FACCTs_ORCA & MPI Kofo) both to generate them and to test new methods. With ORCA 6, many tasks became even faster. Try it out, it's completely free for academic use!

#ORCAqc #ORCA6 #CompChem #ChemSky

pubs.acs.org/doi/10.1021/...
Emerging Conformational-Analysis Protocols from the RTCONF55-16K Reaction Thermochemistry Conformational Benchmark Set
RTCONF55-16K is a new, reactive conformational data set based on cost-efficient methods to assess different conformational analysis protocols. Our reference calculations underpinned the accuracy of th...
pubs.acs.org
October 1, 2024 at 3:48 PM
Reposted by Piyush
We are delighted to support Benjamin Pölloth's Comp-Chem-Lab project, which uses ORCA to introduce high school students to quantum chemistry. Check out the article and the website of the project:

doi.org/10.1021/acs....
www.comp-chem-lab.de/en

#ORCAqc #ChemicalEducation #CompChemSky #ChemSky
High School Students Experimenting with Computational Chemistry: Design-Based Research on and through the “Comp-Chem-Lab”
Despite the profound impact of Computational Chemistry (CC) on chemical research and understanding, it plays a negligible role in high school chemistry curricula. Integrating CC into high school educa...
doi.org
March 7, 2025 at 9:06 AM
Reposted by Piyush
Solute-solvent interactions can have a decisive influence on reaction mechanisms and selectivities. Bistoni, Neese, Harden and co-workers studied the van der Waals solute-solvent interactions in detail using ORCA's method toolkit.

doi.org/10.1039/D4SC...

#ORCAqc #ChemSky #CompChemSky
Understanding and quantifying the impact of solute–solvent van der Waals interactions on the selectivity of asymmetric catalytic transformations
The majority of enantioselective organocatalytic reactions occur in apolar or weakly polar organic solvents. Nevertheless, the influence of solute–solvent van der Waals forces on the relative kinetics...
doi.org
March 17, 2025 at 9:24 AM
Reposted by Piyush
We’ve derived and implemented analytical SCF energy gradients for the conductor-like polarizable continuum model with non-static radii.

Another fruitful collaboration with @faccts.de!

🔗 doi.org/10.1002/jcc....

Who knows what kind of models could be developed with non-static radii...
Analytical First Derivatives of the SCF Energy for the Conductor‐Like Polarizable Continuum Model With Non‐Static Radii
Derivation and implementation of the analytical gradients for the iSwiG CPCM model with general coordinate-dependent radii. This is done using van der Waals cavities in combination with the DRACO sch...
doi.org
April 24, 2025 at 2:47 PM