Zongchang Li's repositories
aneufinder
Find CNVs in single cell sequencing data.
awesome-single-cell
List of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.
ComprehensiveMultiOmicsAnalysis_MZDSCZ
Integrative analysis of genome (WGS), methylome(WGBS), transcriptome(RNA-seq) and proteome data to investigate the genetic mechanisms to underlying monozygotic twin pairs discordant for schizophrenia
eMAGMA-tutorial
A step by step guide on how to use eMAGMA, an approach to conducting eQTL informed gene-based tests.
epigenetic_ageing_clock
Biological insights into the epigenetic ageing clock
gtex-pipeline
GTEx & TOPMed data production and analysis pipelines
Liu2020ProteinCell
Pipeline & Reproducible analysis examples for amplicon and metagenome in microbiome
maftools
Summarize, Analyze and Visualize MAF files from TCGA or in house studies.
methylpy
WGBS/NOMe-seq Data Processing & Differential Methylation Analysis
MicrobiomeProtocol
Microbiome Protocol eBook related documents and scripts.
MosaicForecast
A mosaicSNV detecting software based on phasing and random forest
MutationalPatterns
R package for extracting and visualizing mutational patterns in base substitution catalogues
rnaseq-1
RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.
wgbs-pipeline
ENCODE whole-genome bisulfite sequencing (WGBS) pipeline