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Lists (6)
Starred repositories
scDataset: Scalable Data Loading for Deep Learning on Large-Scale Single-Cell Omics
A Fast, Adaptive, Stable, and Transferable Topic Model (NeurIPS 2024)
scDoRI (single-cell Deep multi-Omic Regulatory Inference) is a deep learning model to infer enhancer-mediated gene regulatory networks (eGRNs) from single-cell multiome data (RNA + ATAC).
Comparison of Topic Models
Biological sequence analysis for the modern age.
Leveraging BERT and c-TF-IDF to create easily interpretable topics.
🌲 Stanford CS 228 - Probabilistic Graphical Models
Following along with Statistical Rethinking text on Bayesian modeling by McElreath
Snakemake workflow for comparing E-G links to experimental data
Tutorials for computational methods (Signac, Cicero, SCENT, ArchR) linking peaks to genes using single-cell RNA + ATAC multiome data.
PyTorch Lightning + Hydra. A very user-friendly template for ML experimentation. ⚡🔥⚡
Pytorch implementation of the Borzoi model from Calico, and Flashzoi, a 3x faster Borzoi enhancement.
This repository hosts a minimal version of a Python API for BPNet.
Code for the analysis performed in the paper "Transcription factor stoichiometry, motif affinity and syntax regulate single-cell chromatin dynamics during fibroblast reprogramming to pluripotency" …
A set of best practices for JavaScript projects
😎 A curated list of awesome github pages porfolio templates 📝
Python interface to access reference genome features (such as genes, transcripts, and exons) from Ensembl
Entrain: Predicting Environmental Regulators of Differentiation Trajectories
Curated list of project-based tutorials