zhumengyan

AITL2023

code for our publication

analysis-salt-responsive

Analysis of 16S sequencing data for paper "Salt-responsive gut commensal modulates TH17 axis and disease"

AnnotationDatabase

annotation database for human genetics, genomics and epigenomics

atac-seq_related

awesome-single-cell

List of software packages for single-cell data analysis, including RNA-seq, ATAC-seq, etc.

bioinfo_tasks

储存一些平时写的小脚本及帮助文件

Bioinformatics-Resources

A curated list of resources for learning bioinformatics.

cNMF

Code and example data for running Consensus Non-negative Matrix Factorization on single-cell RNA-Seq data

r4ds

R for data science

SEACells

SEACells algorithm for Inference of transcriptional and epigenomic cellular states from single-cell genomics data

zhumengyan/r4ds

R for data science

zhumengyan/SEACells

SEACells algorithm for Inference of transcriptional and epigenomic cellular states from single-cell genomics data

zhumengyan/AITL2023

code for our publication

zhumengyan/AnnotationDatabase

annotation database for human genetics, genomics and epigenomics

zhumengyan/atac-seq_related

zhumengyan/awesome-single-cell

List of software packages for single-cell data analysis, including RNA-seq, ATAC-seq, etc.

zhumengyan/bioinfo_tasks

储存一些平时写的小脚本及帮助文件

zhumengyan/Bioinformatics-Resources

A curated list of resources for learning bioinformatics.

zhumengyan/cNMF

Code and example data for running Consensus Non-negative Matrix Factorization on single-cell RNA-Seq data

zhumengyan/CNV-pepline

list softwares and papers about copy number variation

zhumengyan/DataWarehouse

DataSource

zhumengyan/gggenes

➡️️➡️️⬅️️➡️️ Draw gene arrow maps in ggplot2

zhumengyan/Hannigan_CRCVirome_mBio_2018

Investigating the gut virus communities associated with colon cancer.

zhumengyan/HCC2023

code for HCC analysis

zhumengyan/HoneyBADGER

HMM-integrated Bayesian approach for detecting CNV and LOH events from single-cell RNA-seq data

zhumengyan/ImmuneResistance

This resource provides the code developed in the study of Jerby-Arnon _et al. "Single-cell RNA-seq of melanoma ecosystems reveals sources of T cell exclusion linked to immunotherapy clinical outcomes".

zhumengyan/interesting_papers

interesting papers

zhumengyan/msigdf

Molecular Signatures Database (MSigDB) in a data frame

zhumengyan/my_spiders

zhumengyan/myblog

my blog using rblogdown

zhumengyan/nanopore_related

nanopore sequencing

zhumengyan/novobreak_src

zhumengyan/pySCENIC

pySCENIC is a lightning-fast python implementation of the SCENIC pipeline (Single-Cell rEgulatory Network Inference and Clustering) which enables biologists to infer transcription factors, gene regulatory networks and cell types from single-cell RNA-seq data.

zhumengyan/R_plot

ggplot2图形绘制学习模仿

zhumengyan/scFEA

single cell Flux Estimation Analysis (scFEA)

zhumengyan/scrat

Sing Cell R Analysis Toolkit

zhumengyan/scRNA.seq.course

Analysis of single cell RNA-seq data course

zhumengyan/SingleR

SingleR: Single-cell RNA-seq cell types Recognition

zhumengyan/TCAG-WGS-CNV-workflow

Scripts involved in our workflow for detecting CNVs from WGS data using read depth-based methods

zhumengyan/tmpdata