Pinned Repositories
awesome-single-cell
Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.
changepoint
GEOsearch
GSCA
GSCA: Gene Set Context Analysis
RMRCE
SCATE
SCATE: Single-cell ATAC-seq Signal Extraction and Enhancement
SCRAT
SCRAT: Single-Cell Regulome Analysis Tool
SEPA
STIP
STIP: State Transition Inference Prediction
TSCAN
TSCAN: Tools for Single-Cell ANalysis
zji90's Repositories
zji90/TSCAN
TSCAN: Tools for Single-Cell ANalysis
zji90/SCRAT
SCRAT: Single-Cell Regulome Analysis Tool
zji90/SCATE
SCATE: Single-cell ATAC-seq Signal Extraction and Enhancement
zji90/GEOsearch
zji90/awesome-single-cell
Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.
zji90/STIP
STIP: State Transition Inference Prediction
zji90/ArchR
ArchR : Analysis of Regulatory Chromatin in R (www.ArchRProject.com)
zji90/ComplexHeatmap
Make Complex Heatmaps
zji90/copykat
zji90/DL_code
zji90/esvd
zji90/eSVD_evaluation
zji90/Giotto_site
Website for the Giotto spatial toolbox
zji90/HiTC
This is a read-only mirror of the Bioconductor SVN repository. Package Homepage: http://bioconductor.org/packages/devel/bioc/html/HiTC.html Bug Reports: https://support.bioconductor.org/p/new/post/?tag_val=HiTC.
zji90/ideas
Individual level Differential Expression Analysis for Single cells
zji90/jhu-dissertation-mwe
JHU Dissertation LaTeX mwe
zji90/mbImpute
mbImpute: an accurate and robust imputation method for microbiome data
zji90/MetaboAnalystR
R package for MetaboAnalyst
zji90/microbiome_taxacontrol
Code to reproduce results in the microbiome taxonomic abundances control paper
zji90/monocle3
zji90/nnSVG
nnSVG: scalable method to identify spatially variable genes (SVGs) in spatially-resolved transcriptomics data
zji90/raisin
zji90/scDD
R package to identify genes with differential distributions in single-cell RNA-seq
zji90/scRecover
Modest imputation for single-cell RNA-seq data. Homepage: https://miaozhun.github.io/scRecover. Bioconductor page: https://bioconductor.org/packages/scRecover.
zji90/Smmit
zji90/tradeSeq
TRAjectory-based Differential Expression analysis for SEQuencing data
zji90/trendsceek
Identify genes with spatial expression trends in single-cell gene expression data
zji90/Viral-Track
zji90/z
z - jump around
zji90/zji90.github.io
website