RNA-seq prediction with deep convolutional neural networks.

Data and analysis for NA12878 genome on nanopore

A Deep Learning-Based Model for Quantifying Transposable Elements in Single-Cell Sequencing Data

Code and data sharing of Liu et al. 2023 manuscript

Quantifying experimental perturbations at single cell resolution

[ICLR 2024] DNABERT-2: Efficient Foundation Model and Benchmark for Multi-Species Genome

code to run sei and obtain sei and sequence class predictions

Official home of genome aligner based upon notion of Cactus graphs

HapHiC: a fast, reference-independent, allele-aware scaffolding tool based on Hi-C data

TAD calling, phase imputation, 3D modeling and more for diploid single-cell Hi-C (Dip-C) and general Hi-C

A computation framework for genome-wide detection of enhancer-hijacking events from chromatin interaction data in re-arranged genomes

Useful functions to make your scRNA-seq plot more cool!

Toolkit for analyzing genetics data from admixed populations

Development for SAIGE and SAIGE-GENE(+)

Analysis code for sc-veQTL study

Contains code to analyze the OneK1K data and perform eQTL mapping of 14 cell types

Allo: a multi-mapped read rescue strategy for gene regulatory analyses

Covarying neighborhood analysis (CNA) is a method for finding structure in- and conducting association analysis with multi-sample single-cell datasets.

MethPhaser: methylation-based haplotype phasing of human genomes

Python library to handle Gene Ontology (GO) terms

一些我在平时工作和学习中积累的编程相关的资源。如果大家有兴趣可以一起增加，修改。

Compendium of available lists of ligand-receptor pairs and surface-secreted protein interactions.

A python package that links enhancers to genes using single-cell transcriptomes and epigenomes

Spatial alignment of single cell transcriptomic data.

Successful Job Applications and Grants

A tool for detecting somatic variants in single cell data