Adam Youlin He's Projects
Config files for my GitHub profile.
Curated QTLs used in the Borzoi paper.
Code for the paper "Integrating regulatory DNA sequence and gene expression to predict genome-wide chromatin accessibility across cellular contexts"
A unified framework of perturbation and gradient-based attribution methods for Deep Neural Networks interpretability
Detecting Regulatory Elements using GRO-seq and PRO-seq
More accessible dump of the PWMs from ElemeNT (10.1080/21541264.2015.1067286)
Implementation of Enformer, Deepmind's attention network for predicting gene expression, in Pytorch
Example code for fitting the ExP model from Bergman et al. 2022
Deep & Classical Reinforcement Learning + Machine Learning Examples in Python
Mac setup and configuration via Ansible.
Repository for modeling PRO-cap data with BPNet.
A tool to help calculate fusions in Persona 5.
Preprocesses and Aligns Run-On Sequencing (PRO/GRO/ChRO-seq) data from Single-Read or Paired-End Illumina Sequencing
A lite implementation of tfmodisco, a motif discovery algorithm for genomics experiments.
A Python module for loading phenotypic and genetic data from the UK Biobank.
Training material based on webinar events