Jian-Guo Zhou's Projects
Framework to process and call somatic variation from NGS dataset generated using MSK-IMPACT assay
ImReP is a computational method for rapid and accurate profiling of the adaptive immune repertoire from regular RNA-Seq data.
Ratio of the interferon-γ signature to the immunosuppression signature predicts anti-PD-1 therapy response in melanoma
Inferring CNV from Single-Cell RNA-Seq
Intro to ChIPseq using HPC
IOBR is an R package to perform comprehensive analysis of tumor microenvironment and signatures for immuno-oncology.
This R package calculates various measures of association and helps understand and visualize the link between causal models such as Marginal Structural Models and Standerdized measures.
Machine learning-based integrative analysis develops an immune-derived lncRNA signature for improving clinical outcomes in colorectal cancer
Just a Microbiology System (JAMS) - a suite for analyzing microbiological sequencing data for use on NIH HPC systems (Biowulf)
Joint Models for Longitudinal and Survival Data using MCMC
Extended Joint Models for Longitudinal and Survival Data
Bostongene cell deconvolution algorithm from RNAseq
Function that performs 1,000 iterations of n-fold cross validation, default is LASSO penalized regression
Known and Novel IsoForm Explorer. Statistically based splicing detection for circular and linear isoforms
The second version of the Kraken taxonomic sequence classification system
Repository for all the labs for Spring 2021
Microassembly based somatic variant caller for NGS data
Code for Epigenomics and Single-cell Sequencing Define a Developmental Hierarchy in Langerhans Cell Histiocytosis (Halbritter, Farlik, et al. 2019 Cancer Discov.)
Annotation-free quantification of RNA splicing. Yang I. Li, David A. Knowles, Jack Humphrey, Alvaro N. Barbeira, Scott P. Dickinson, Hae Kyung Im, Jonathan K. Pritchard
See the update fork of this repository here >>> https://github.com/nf-core/lncpipe/tree/dev
lncRNA分析流程
De novo lncRNA discovery pipeline, re-write of PLAR by shell and awk
It is a repository that contains information about my master's project. The main topic is lincRNA as biomarkers in breast cancer. The main objective is to identificate lincRNA biomarkers by transcriptome analysis
The open source code of pipeline for the identification of long non-coding RNAs
ENCODE long read RNA-seq pipeline