Joe Zhou's repositories
scalable-NGS
Scalable NGS pipeline implemented in Spark environment
AnnotSV
Annotation and Ranking of Structural Variation
cnvkit
Copy number variant detection from targeted DNA sequencing
deepvariant
DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.
dockstore-cgpwgs
Dockstore implementation of CGP core WGS analysis
GO_prediction_ML
Gene Ontology Prediction Using Machine Learning Methods
GPU_mapping
Parallel short read mapping using CUDA
mlflow
Open source platform for the machine learning lifecycle
playground
An irrelevant project where I keep various code I wrote while learning
seqTools
Program for searching target sequences and analyze genes based on number of sequence matches
THetA
Tumor Heterogeneity Analysis (THetA) and THetA2 are algorithms that estimate the tumor purity and clonal/subclonal copy number aberrations directly from high-throughput DNA sequencing data. This repository includes the updated algorithm, called THetA2.
toil_container
:whale: A python package with container support for Toil pipelines.
YikYakTerminal
Python Yik Yak Command Line + YakMining + CSV keyword search = Happy College IT