Jinmiao Chen's Lab

single cell and AI for precision immunology

A STAR, Singapore

Pinned Repositories

Batch-effect-removal-benchmarking
A benchmark of batch-effect correction methods for single-cell RNA sequencing data
Language:Jupyter Notebook74 10 1647
cytofkit
cytofkit: an integrated flow/mass cytometry data analysis pipeline
Language:R57 15 9127
DISCOtoolkit
Language:R29 3 45
ezSingleCell2
Language:R54 6 37
FastIntegration
FastIntegrate integrates thousands of scRNA-seq datasets and outputs batch-corrected values for downstream analysis
Language:R23 6 94
GraphST
Language:Python112 2 4615
Rphenograph
Rphenograph: R implementation of the PhenoGraph algorithm
Language:R47 6 1528
SEDR
Language:Python54 8 1510
SEDR_analyses
Language:R39 8 1016
SpatialGlue
SpatialGlue is a novel deep learning methods for spatial multi-omics data integration.
Language:Python52 1 188

Jinmiao Chen's Lab's Repositories

JinmiaoChenLab/GraphST
Language:Python112 2 4615
JinmiaoChenLab/Batch-effect-removal-benchmarking
A benchmark of batch-effect correction methods for single-cell RNA sequencing data
Language:Jupyter Notebook74 10 1647
JinmiaoChenLab/cytofkit
cytofkit: an integrated flow/mass cytometry data analysis pipeline
Language:R57 15 9127
JinmiaoChenLab/ezSingleCell2
Language:R54 6 37
JinmiaoChenLab/SEDR
Language:Python54 8 1510
JinmiaoChenLab/SpatialGlue
SpatialGlue is a novel deep learning methods for spatial multi-omics data integration.
Language:Python52 1 188
JinmiaoChenLab/Rphenograph
Rphenograph: R implementation of the PhenoGraph algorithm
Language:R47 6 1528
JinmiaoChenLab/SEDR_analyses
Language:R39 8 1016
JinmiaoChenLab/DISCOtoolkit
Language:R29 3 45
JinmiaoChenLab/FastIntegration
FastIntegrate integrates thousands of scRNA-seq datasets and outputs batch-corrected values for downstream analysis
Language:R23 6 94
JinmiaoChenLab/cytofkit2
Language:R22 15 5215
JinmiaoChenLab/scTM
scTM: A package for topic modelling in transcriptomics data
Language:Python15 2 110
JinmiaoChenLab/DISCOtoolkit_py
Python version of DISCO toolkit
Language:Python13 4 71
JinmiaoChenLab/ezSingleCell
GUI implementation for Seurat using shiny
Language:R6 5 00
JinmiaoChenLab/SpatialGlue_3M
Extended version of SpatialGlue for integration of spatial triplet modality data.
Language:Python5 1 0
JinmiaoChenLab/SpatialGlue_notebook
Language:Jupyter Notebook5 1 31
JinmiaoChenLab/Bone_Marrow_Aging
Language:R4 3 1
JinmiaoChenLab/GraphST_Tutorials
Language:Python2 2 13
JinmiaoChenLab/Harmony
Language:R2 4 21
JinmiaoChenLab/NNI_brain_code
Language:R1 2 0
JinmiaoChenLab/SpatialGlue_tutorials
The tutorial is to show how to apply SpatialGlue to integrate spatial multi-omics data to decipher tissue heterogeneity.
Language:Python1 1 01
JinmiaoChenLab/uSORT
uSORT: A self-refining ordering pipeline for gene selection
Language:R1 3 0
JinmiaoChenLab/oneSENSE
Language:R0 4 63
JinmiaoChenLab/SC-QC
Quality control for Single-cell RNA-seq data
Language:R0 4 01
JinmiaoChenLab/CycleX
Scripts to reproduce Yong Kee's Thesis
5 0
JinmiaoChenLab/cytofkit2-1
Language:R1 01
JinmiaoChenLab/GENEX
Language:Jupyter Notebook
JinmiaoChenLab/MCGC
Language:Python1 01
JinmiaoChenLab/pyGAT
Pytorch implementation of the Graph Attention Network model by Veličković et. al (2017, https://arxiv.org/abs/1710.10903)
Language:Python0 0
JinmiaoChenLab/SpaMosaic
Language:Jupyter Notebook1