A GUI tools for Gap closed based on assembly graph

GapSuite is a platform for gap filling.

Structural variant VCF annotation, duplicate removal and comparison

Code to reproduce ovrlpy paper

A python tool to investigate cell overlaps in imaging-based spatial transcriptomics data.

Representation learning on large graphs using stochastic graph convolutions.

Pipelines and scripts for Cucurbitaceae genomics and evolution

NeuroPathology Spatial Transcriptomic Analysis

Code to reproduce analysis of Milo manuscript

R package implementation of Milo for testing for differential abundance in KNN graphs

COPD snRNA-seq analysis code

Code used to benchmark Xenium

MultiSuSiE is a multi-ancestry extension of the Sum of Single Effects model

R toolkit for enhanced downstream analysis of Taiji

A tool for visulization of Genome data

HERRO is a highly-accurate, haplotype-aware, deep-learning tool for error correction of Nanopore R10.4.1 or R9.4.1 reads (read length of >= 10 kbps is recommended).

Cross-population polygenic prediction

Phenome Exome Association and Correlation Of Key phenotypes

An R package for multivariate adaptive shrinkage.

R package for "sum of single effects" regression.

A new model and algorithm for multivariate Bayesian variable selection regression.

tandemtwister: Tandem repeat genotyping tool

HistoSweep is an unsupervised and computationally efficient QC tool that performs comprehensive quality filtering on histology images to identify high-quality superpixels for downstream analysis

A tutorial on how to annotate and interpret novel mammalian reference genomes

jupyter notebooks of the analysis in ECHO paper