mnarayan

paper-qa

High accuracy RAG for answering questions from scientific documents with citations

DeepPurpose

A Deep Learning Toolkit for DTI, Drug Property, PPI, DDI, Protein Function Prediction (Bioinformatics)

megablocks-public

practical_cheminformatics_tutorials

Practical Cheminformatics Tutorials

obsidian-zola

A no-brainer solution to turning your Obsidian PKM into a Zola site.

gt4sd-core

GT4SD, an open-source library to accelerate hypothesis generation in the scientific discovery process.

LLMs-Finetuning-Safety

We jailbreak GPT-3.5 Turbo’s safety guardrails by fine-tuning it on only 10 adversarially designed examples, at a cost of less than $0.20 via OpenAI’s APIs.

perfect_match

➕➕ Perfect Match is a simple method for learning representations for counterfactual inference with neural networks.

Zettels

Zettels Hugo Theme

scPerturb

scPerturb: A resource and a python/R tool for single-cell perturbation data

proteinshake

Protein structure datasets for machine learning.

drnet

💉📈 Dose response networks (DRNets) are a method for learning to estimate individual dose-response curves for multiple parametric treatments from observational data using neural networks.

MetricsMLNotebooks

Notebooks for Applied Causal Inference Powered by ML and AI

organage

A package to estimate biological organ age using SomaScan plasma proteomics data

ame

🤖🤖 Attentive Mixtures of Experts (AMEs) are neural network models that learn to output both accurate predictions and estimates of feature importance for individual samples.

velodyn

Dynamical systems methods for RNA velocity analysis

qcbc

AbLang2

An antibody-specific language model focusing on NGL prediction

MTExplainer

This is an updated version of the MolecularTransformer of Schwaller et. al.

bayes_diffexpr

code associated with publication: Inferring the immune response from repertoire sequencingPuelma Touzel, M PLoS Comp Bio 2020

ccs

ENGRAM

stats-models

BIDS Stats Models Specification

Cellular_Morphological_Features-Improve-Prediction-of-Cytotoxicity--and-Proliferation-Related-Assay-

Cellular Morphological Features Improve Prediction of Cytotoxicity- and Proliferation-Related Assay Endpoints when Augmented with Molecular Fingerprints

Mendelson_et_al_2023

multidms

Joint modeling of multiple deep mutational scanning experiments

SARS-CoV-2_spike_multidms

Comparing DMS datasets for spike from Delta, Omicron BA.1, and Omicron BA.2

awesome-surrogates

A correlate does not a surrogate make

ACIDES

ACIDES to analyze forward genetic screens datasets

pytorch-tsmixer

A pip-installable PyTorch implementation of TSMixer, providing an easy-to-use and efficient solution for time-series forecasting.