mnarayan

DNABERT_S

DNABERT_S: Learning Species-Aware DNA Embedding with Genome Foundation Models

llm-finetuning

Guide for fine-tuning Llama/Mistral/CodeLlama models and more

awesome-llm-resources

a collection of resources around LLMs, aggregated for the workshop "Mastering LLMs: End-to-End Fine-Tuning and Deployment" by Dan Becker and Hamel Husain"

CiPA

awesome-equivariant-network

Paper list for equivariant neural network

admiral

ADaM in R Asset Library

cards

CDISC Analysis Results Data

ECoG-foundation-model

Self-supervised ECoG foundation model

OmicTranslationBenchmark

DejaVu

DebuggableDeepNetworks

2015-slides

Slides and talk assets from PyCon 2015

pygformula

The pygformula implements the parametric g-formula in Python. The parametric g-formula (Robins, 1986) uses longitudinal data with time-varying treatments and confounders to estimate the risk or mean of an outcome under hypothetical treatment strategies specified by the user.

DSPIN

Code and example of the D-SPIN framework

metk

Model Evaluation Toolkit

solubility

An implementation of Delaney's ESOL method using the RDKit

lohi_splitter

Lo-Hi Splitter for Modern Splits of Molecular Datasets

synthetic_lethality

psb_supplement

This repository contains the code and supplement for the PSB submission (link to paper will be added here soon).

Perturb-CITE-seq

Minimal_Experimental_Design

Codes corresponding to work in manuscript "Minimally Sufficient Experimental Design using Identifiability Analysis"

actlearn_optint

Active learning for optimal intervention design in causal models

GEARS

GEARS is a geometric deep learning model that predicts outcomes of novel multi-gene perturbations

sc-pert

Models and datasets for perturbational single-cell omics

SeitzmanGratton-2019-PNAS

Codebase for Seitzman et al., 2019, PNAS

ulcerative_colitis

sceptre

An R package for single-cell CRISPR screen data analysis emphasizing statistical rigor, massive scalability, and ease of use.

Wonderful-Wednesdays

Repository to hold the data and materials for the Wonderful Wednesdays webinar series https://www.psiweb.org/sigs-special-interest-groups/visualisation/welcome-to-wonderful-wednesdays

lemur

Latent Embedding Multivariate Regression

rambla