BioReason-Pro: Advancing Protein Function Prediction with Multimodal Biological Reasoning

Post-training framework for large models, from new objectives to new rollout systems.

Code to generate figures of paper "When do spectral gradient updates help in deep learning?"

Music is meant to sound good. Use an EQ to hear that difference.

One-click dnstt DNS tunnel server deployment and management script for Linux. Supports multiple distributions, automatic configuration, systemd integration, and interactive management menu.

Deep Implicit Optimization for Robust and Flexible Image Registration

Code for paper: "Fine-Tuning Discrete Diffusion Models via Reward Optimization with Applications to DNA and Protein Design"

[ICML 2025] The Diffusion Duality

Orthrus is a mature RNA model for RNA property prediction. It uses a mamba encoder backbone, a variant of state-space models specifically designed for long-sequence data, such as RNA.

Letting text diffusion models revise their own reasoning, in-place.

PyTorch implementation of MAE https//arxiv.org/abs/2111.06377

Leveraging molecular dynamics data and DiTs to predict dynamic structure of peptides

Latent Diffusion implementation from scratch for my own's sake

Kalshi for Penn (no real money involved)

An Interactive masking tool to use MAEs

Educational framework exploring ergonomic, lightweight multi-agent orchestration. Managed by OpenAI Solution team.

DataDreamer: Prompt. Generate Synthetic Data. Train & Align Models.   🤖💤

CodonTransformer (2M+ Downloads); The tool for codon optimization, optimizing DNA for protein expression

A text adventure game written in Swift based on the Erdos quote : Suppose aliens invade the earth and threaten to obliterate it in a year's time unless human beings can find the Ramsey number for r…

Parsa Idehpour work in LyRl

A highly customizable and mobile first Hugo template for personal portfolio and blog.