Victor-Chen7

Victor-Chen7's Stars

• JEFworks-Lab/STdeconvolve

  Reference-free cell-type deconvolution of multi-cellular spatially resolved transcriptomics data

  Language:R12013

• NMikolajewicz/scMiko

  R package developed for single-cell RNA-seq analysis. It was designed using the Seurat framework, and offers existing and novel single-cell analytic work flows.

  Language:R268

• ati-lz/ISCHIA

  Framework for analysis of cell-types and Ligand-Receptor cooccurrences

  Language:R152

• akinaka-dd/LUAD-Spatial

  Spatial omics analysis of human LUAD by Visium and PhenoCycler

  Language:Python51

• MouseLand/cellpose

  a generalist algorithm for cellular segmentation with human-in-the-loop capabilities

  Language:Jupyter Notebook1.4k414

• FertigLab/CoGAPS

  Bayesian MCMC matrix factorization algorithm

  Language:C++6617

• YMa-lab/CARD

  Language:R10321

• prabhakarlab/Banksy

  BANKSY: spatial clustering

  Language:R8212

• danro9685/CIMLR

  Implementations in both Matlab and R of the CIMLR method. The manuscript of the method is available at: https://www.nature.com/articles/s41467-018-06921-8

  Language:MATLAB177

• wilmerwang/SLFCD

  The solution to cameyon16 and camelyon17 challenge and also to your own WSI data project.

  Language:Python312118

• 3dimaging/DeepLearningCamelyon

  DeepLearning - Camelyon16 dataset

  Language:Jupyter Notebook11931

• xjw00654/convert_kfb2svs

  convert .kfb format whole slide images to .svs format image for further processing

  Language:Python95

• DeshpandeLab/SpaceMarkers

  An R/Bioconductor software tool to identify genes associated with latent space interactions in spatial transcriptomics.

  Language:R45

• atuldeshpande/SpaceMarkers

  An R/Bioconductor software tool to identify genes associated with latent space interactions in spatial transcriptomics.

  Language:HTML1

• statOmics/tradeSeq

  TRAjectory-based Differential Expression analysis for SEQuencing data

  Language:HTML24128

• smorabit/hdWGCNA

  High dimensional weighted gene co-expression network analysis

  Language:R37136

• theMILOlab/SPATA

  SPATA Package for spatial gene expression analysis

  Language:R211

• vigneshshanmug/RCTD

  Cell type identification (including cell type mixtures) and cell type-specific differential expression for spatial transcriptomics

  1

• dmcable/spacexr

  Spatial-eXpression-R: Cell type identification (including cell type mixtures) and cell type-specific differential expression for spatial transcriptomics

  Language:HTML32975

• data2intelligence/SpaCET

  Spatial Cellular Estimator for Tumors

  Language:R464

• ruitian-olivia/IGI-DL

  Code for ST_IGI package

  Language:Jupyter Notebook182

• Yelab2020/Cottrazm

  Construct Tumor Transition Zone Microenvironment

  Language:R397

• cole-trapnell-lab/monocle3

  Language:R359104

• junjunlab/ClusterGVis

  One-step to Cluster and Visualize Gene Expression Matrix

  Language:R26125

• 10XGenomics/loupeR

  Convert Seurat objects to 10x Genomics Loupe files.

  Language:R10615

• mojaveazure/seurat-disk

  Interfaces for HDF5-based Single Cell File Formats

  Language:R15651

• glencoesoftware/bioformats2raw

  Bio-Formats image file format to raw format converter

  Language:Java8435

• immunogenomics/harmony

  Fast, sensitive and accurate integration of single-cell data with Harmony

  Language:R53899

• junjunlab/ggSCvis

  Visualizing SingleCell data Using GGplot2

  Language:R292

• noriakis/CBNplot

  Bayesian network plot for the enrichment analysis results

  Language:R6211