Shuai Wang's repositories
BEAVR
BEAVR: A Browser-based tool for the Exploration And Visualization of RNAseq data
BingleSeq
BingleSeq - A user-friendly R package for Bulk and Single-cell RNA-Seq data analyses
BITFAM
BITFAM is a Bayesian approach and platform to infer transcription factor activities within individual cells using single cell RNA-sequencing data. Please see Gao S et al., Genome Research (2021) https://genome.cshlp.org/content/31/7/1296 for details.
CDSeq_R_Package
CDSeq R Package
cell2location
Comprehensive mapping of tissue cell architecture via integrated single cell and spatial transcriptomics (cell2location model)
cloudimg
My picture in Typora
DataVisualization
Data Visualization by R
ddCt_QuantStudio3
A R/Bioconductor package to perform qRT-PCR data analysis with the ddCt method
GenomicDistributions
Calculate and plot distributions of genomic ranges
GenomicSuperSignature
Interpretation of RNAseq experiments through robust, efficient comparison to public databases
ggseg
Plotting tool for brain atlases, in ggplot
ggseg3d
ggseg3d R package for cisualising brain atlases through plotly
GSEA_R
Updated implementation of the GSEA-P R application for modern R distributions
lab-website-template
(Pre-release) An easy-to-use, flexible website template for labs, with automatic citations, GitHub tag imports, pre-built components, and more
MusculusMus
Config files for my GitHub profile.
pptxtemplates
Provide themed powerpoint presentation templates to rmarkdown
RNASeq_workshop
Materials for the RNAseq Lab and Data Analysis Workshop
Single-nuclei-epigenomic-and-transcriptomic-landscape-in-Alzheimer-disease
Single-nuclei RNA-seq and ATAC-seq in Alzheimer's disease
SpatialFeatureExperiment
Extension of SpatialExperiment with sf
SpatialOmicsOverlay
Tools for analyzing data on the image from NanoString GeoMx Digital Spatial Profiler (DSP).
stereoscope
Spatial mapping of cell types by integration of transcriptomics data
TrendCatcher
TrendCatcher is an open source R-package that allows users to systematically analyze and visualize time course data. Please cite "Temporal transcriptomic analysis using TrendCatcher identifies early and persistent neutrophil activation in severe COVID-19" by Xinge Wang et al published in JCI Insight (2022) - https://insight.jci.org/articles/view/157255
TRESS
Toobox for RNA Methylation Sequencing Analysis
velocyto.R
RNA velocity estimation in R