A repository with exploration into using transformers to predict DNA ↔ transcription factor binding

Overview

Transcription Factor binding predictions with Attention and Transformers

A repository with exploration into using transformers to predict DNA transcription factor binding. If you are a researcher interested in this problem, please join the discord server for discussions.

Appreciation

This work is generously sponsored by Jeff Hsu to be done completely open sourced.

You might also like...
Autolfads-tf2 - A TensorFlow 2.0 implementation of Latent Factor Analysis via Dynamical Systems (LFADS) and AutoLFADS

autolfads-tf2 A TensorFlow 2.0 implementation of LFADS and AutoLFADS. Installati

A mini lib that implements several useful functions binding to PyTorch in C++.

Torch-gather A mini library that implements several useful functions binding to PyTorch in C++. What does gather do? Why do we need it? When dealing w

Official implementation of
Official implementation of "Generating 3D Molecules for Target Protein Binding"

Generating 3D Molecules for Target Protein Binding This is the official implementation of the GraphBP method proposed in the following paper. Meng Liu

Patient-Survival - Using Python, I developed a Machine Learning model using classification techniques such as Random Forest and SVM classifiers to predict a patient's survival status that have undergone breast cancer surgery.

Patient-Survival - Using Python, I developed a Machine Learning model using classification techniques such as Random Forest and SVM classifiers to predict a patient's survival status that have undergone breast cancer surgery.

[ICLR 2021] Rank the Episodes: A Simple Approach for Exploration in Procedurally-Generated Environments.
[ICLR 2021] Rank the Episodes: A Simple Approach for Exploration in Procedurally-Generated Environments.

[ICLR 2021] RAPID: A Simple Approach for Exploration in Reinforcement Learning This is the Tensorflow implementation of ICLR 2021 paper Rank the Episo

A mini library for Policy Gradients with Parameter-based Exploration, with reference implementation of the ClipUp optimizer  from NNAISENSE.
A mini library for Policy Gradients with Parameter-based Exploration, with reference implementation of the ClipUp optimizer from NNAISENSE.

PGPElib A mini library for Policy Gradients with Parameter-based Exploration [1] and friends. This library serves as a clean re-implementation of the

Code for the paper Language as a Cognitive Tool to Imagine Goals in Curiosity Driven Exploration
Code for the paper Language as a Cognitive Tool to Imagine Goals in Curiosity Driven Exploration

IMAGINE: Language as a Cognitive Tool to Imagine Goals in Curiosity Driven Exploration This repo contains the code base of the paper Language as a Cog

 Exploration-Exploitation Dilemma Solving Methods
Exploration-Exploitation Dilemma Solving Methods

Exploration-Exploitation Dilemma Solving Methods Medium article for this repo - HERE In ths repo I implemented two techniques for tackling mentioned t

PULSE: Self-Supervised Photo Upsampling via Latent Space Exploration of Generative Models
PULSE: Self-Supervised Photo Upsampling via Latent Space Exploration of Generative Models

PULSE: Self-Supervised Photo Upsampling via Latent Space Exploration of Generative Models Code accompanying CVPR'20 paper of the same title. Paper lin

Releases(v0.0.118)
Owner
Phil Wang
Working with Attention. It's all we need
Phil Wang
Official Matlab Implementation for "Tiny Obstacle Discovery by Occlusion-aware Multilayer Regression", TIP 2020

Tiny Obstacle Discovery by Occlusion-aware Multilayer Regression Official Matlab Implementation for "Tiny Obstacle Discovery by Occlusion-aware Multil

Xuefeng 5 Jan 15, 2022
Like a cowsay but without cows!

Foxsay This is a simple program that generates pictures of a cute fox with a message. It is like a cowsay but without cows! Fox girls are better! Usag

Anastasia Kim 28 Feb 20, 2022
Video Matting via Consistency-Regularized Graph Neural Networks

Video Matting via Consistency-Regularized Graph Neural Networks Project Page | Real Data | Paper Installation Our code has been tested on Python 3.7,

41 Dec 26, 2022
Simple ray intersection library similar to coldet - succedeed by libacc

Ray Intersection This project offers a header only acceleration structure library including implementations for a BVH- and KD-Tree. Applications may i

Nils Moehrle 29 Jun 23, 2022
PyTorch implementation of NeurIPS 2021 paper: "CoFiNet: Reliable Coarse-to-fine Correspondences for Robust Point Cloud Registration"

PyTorch implementation of NeurIPS 2021 paper: "CoFiNet: Reliable Coarse-to-fine Correspondences for Robust Point Cloud Registration"

76 Jan 03, 2023
【ACMMM 2021】DSANet: Dynamic Segment Aggregation Network for Video-Level Representation Learning

DSANet: Dynamic Segment Aggregation Network for Video-Level Representation Learning (ACMMM 2021) Overview We release the code of the DSANet (Dynamic S

Wenhao Wu 46 Dec 27, 2022
Wanli Li and Tieyun Qian: Exploit a Multi-head Reference Graph for Semi-supervised Relation Extraction, IJCNN 2021

MRefG Wanli Li and Tieyun Qian: "Exploit a Multi-head Reference Graph for Semi-supervised Relation Extraction", IJCNN 2021 1. Requirements To reproduc

万理 5 Jul 26, 2022
Making Structure-from-Motion (COLMAP) more robust to symmetries and duplicated structures

SfM disambiguation with COLMAP About Structure-from-Motion generally fails when the scene exhibits symmetries and duplicated structures. In this repos

Computer Vision and Geometry Lab 193 Dec 26, 2022
MT-GAN-PyTorch - PyTorch Implementation of Learning to Transfer: Unsupervised Domain Translation via Meta-Learning

MT-GAN-PyTorch PyTorch Implementation of AAAI-2020 Paper "Learning to Transfer: Unsupervised Domain Translation via Meta-Learning" Dependency: Python

29 Oct 19, 2022
Material for my PyConDE & PyData Berlin 2022 Talk "5 Steps to Speed Up Your Data-Analysis on a Single Core"

5 Steps to Speed Up Your Data-Analysis on a Single Core Material for my talk at the PyConDE & PyData Berlin 2022 Description Your data analysis pipeli

Jonathan Striebel 9 Dec 12, 2022
torchbearer: A model fitting library for PyTorch

Note: We're moving to PyTorch Lightning! Read about the move here. From the end of February, torchbearer will no longer be actively maintained. We'll

632 Dec 13, 2022
Real-time LIDAR-based Urban Road and Sidewalk detection for Autonomous Vehicles 🚗

urban_road_filter: a real-time LIDAR-based urban road and sidewalk detection algorithm for autonomous vehicles Dependency ROS (tested with Kinetic and

JKK - Vehicle Industry Research Center 180 Dec 12, 2022
Convolutional neural network web app trained to track our infant’s sleep schedule using our Google Nest camera.

Machine Learning Sleep Schedule Tracker What is it? Convolutional neural network web app trained to track our infant’s sleep schedule using our Google

g-parki 7 Jul 15, 2022
OpenMMLab Video Perception Toolbox. It supports Video Object Detection (VID), Multiple Object Tracking (MOT), Single Object Tracking (SOT), Video Instance Segmentation (VIS) with a unified framework.

English | 简体中文 Documentation: https://mmtracking.readthedocs.io/ Introduction MMTracking is an open source video perception toolbox based on PyTorch.

OpenMMLab 2.7k Jan 08, 2023
Flower - A Friendly Federated Learning Framework

Flower - A Friendly Federated Learning Framework Flower (flwr) is a framework for building federated learning systems. The design of Flower is based o

Adap 1.8k Jan 01, 2023
Project to create an open-source 6 DoF input device

6DInputs A Project to create open-source 3D printed 6 DoF input devices Note the plural ('6DInputs' and 'devices') in the headings. We would like seve

RepRap Ltd 47 Jul 28, 2022
Pytorch GUI(demo) for iVOS(interactive VOS) and GIS (Guided iVOS)

GUI for iVOS(interactive VOS) and GIS (Guided iVOS) GUI Implementation of CVPR2021 paper "Guided Interactive Video Object Segmentation Using Reliabili

Yuk Heo 13 Dec 09, 2022
Lung Pattern Classification for Interstitial Lung Diseases Using a Deep Convolutional Neural Network

ild-cnn This is supplementary material for the manuscript: "Lung Pattern Classification for Interstitial Lung Diseases Using a Deep Convolutional Neur

22 Nov 05, 2022
PolyGlot, a fuzzing framework for language processors

PolyGlot, a fuzzing framework for language processors Build We tested PolyGlot on Ubuntu 18.04. Get the source code: git clone https://github.com/s3te

Software Systems Security Team at Penn State University 79 Dec 27, 2022
MegEngine implementation of YOLOX

Introduction YOLOX is an anchor-free version of YOLO, with a simpler design but better performance! It aims to bridge the gap between research and ind

旷视天元 MegEngine 77 Nov 22, 2022