An R package to estimate relative protein abundances from ion quantification in DIA-MS-based proteomics

Collection of bioinformatics training materials

Wireflow - user flow chart real-time collaborative tool

RNA-seq analysis pipeline for detection of gene-fusions

modular & open DIA search

State is a machine learning model that predicts cellular perturbation response across diverse contexts

Nextflow training material

A set of ready to use scientific skills for Claude

A repository that mathematically proves modern AI systems are just classical mathematics with better computers.

a workflow to calculate cosine similarity in Nextflow

Cell2Sentence: Teaching Large Language Models the Language of Biology

Specialized Rust CSV parsers/writers leveraging SIMD instructions.

this includes the pan-cancer analysis of gene regulatory landscape

A neural network from scratch in C++ using MLX

Utilities for interpretable ML with SPLIT and XGBoost. Developed during Rutgers MBS DIMACS externship (Summer 2025).

A JAX-native LLM Post-Training Library

First try at building game.. so terrible but i had fun and learned alot about myself limitation and respect for game devs

pratrical crash course on pytorch by reproducing some published biology-related deep-learning models

Teaching tool and debugging aid in context of references, mutable data types, and shallow and deep copy.

Genome modeling and design across all domains of life

Experimenting with Time Series

Batch Correction and Adaptive Contrast Calling in Complex RNA-seq Experimental Designs Using DESeq2