Alternatives and similar repositories for SPATCH

Users that are interested in SPATCH are comparing it to the libraries listed below

• Sanofi-Public / enact-pipeline
  Repository for ENACT pipeline for end-to-end analysis of Visium HD data
  ☆53Updated last month
• grswsci / fromto
  transgenes
  ☆10Updated last month
• BennyStrobes / TGFM
  Tissue-Gene Fine-Mapping
  ☆21Updated 3 months ago
• Banovich-Lab / Spatial_PF
  ☆28Updated 4 months ago
• campbio / decontX
  Methods for decontamination of single cell data
  ☆47Updated 5 months ago
• zhengrongbin / MEBOCOST
  A python-based package and software to predict metabolite mediated cell-cell communications by single-cell RNA-seq data
  ☆76Updated last week
• Teichlab / Genes2Genes
  Aligning gene expression trajectories of single-cell reference and query systems
  ☆69Updated 9 months ago
• aerickso / SpatialInferCNV
  Clone Calling from Visium Spatial Transcriptomics of Cancer samples
  ☆74Updated 2 years ago
• Teichlab / cellhint
  A tool for semi-automatic cell type harmonization and integration
  ☆108Updated 3 months ago
• BGI-DEV-REG / ARTISTA
  Axolotl Regenerative Telencehpalon Interpretation via Spatiotemporal Transcriptomic Atlas
  ☆20Updated 3 years ago
• Japrin / STARTRAC
  STARTRAC(Single T-cell Analysis by Rna-seq and Tcr TRACking)
  ☆107Updated 2 months ago
• KChen-lab / METAFlux
  ☆68Updated last year
• Lan-lab / sc-GC
  ☆30Updated 2 years ago
• tiroshlab / 3ca
  Code for reproducing the analysis in Gavish et al. "The transcriptional hallmarks of intra-tumor heterogeneity across a thousand tumors".
  ☆117Updated 10 months ago
• chloelulu / scMayoMap
  ☆22Updated last year
• BayraktarLab / cell2fate
  Inference of RNA velocity modules for prediction of cell fates and integration with spatial and regulatory models.
  ☆77Updated 3 months ago
• axelalmet / flowsig
  Python package to find communication-driven intercellular flows from single-cell RNA-sequencing and spatial transcriptomics data.
  ☆75Updated 2 months ago
• BernsteinLab / Myeloid-Glioma
  Scripts used to perform the analyses to study the Biology of Myeloid Cells in Glioma Microenvironments
  ☆18Updated 2 months ago
• di-0579 / Spatial_epigenome-transcriptome_co-sequencing
  ☆30Updated 2 years ago
• quadbio / scMultiome_analysis_vignette
  Tutorial of single-cell RNA-ATAC multiomic sequencing data analysis
  ☆60Updated last year
• Nanostring-Biostats / CosMx-Analysis-Scratch-Space
  This repository is an exploratory resource to accelerate opensource analysis of CosMx® Spatial Molecular Imager (SMI) data. Contained her…
  ☆71Updated this week
• Teichlab / SKM_ageing_atlas
  ☆12Updated last year
• NBISweden / single-cell_sib_scilifelab_2021
  SciLifeLab SIB Summer School for Advanced topics in Single Cell Omics. Site: https://nbisweden.github.io/single-cell_sib_scilifelab_2021/
  ☆23Updated 3 years ago
• RausellLab / CelliD
  Gene signature extraction and cell-identity recognition at individual cell level from single-cell RNA-seq.
  ☆95Updated last year
• jackbibby1 / SCPA
  R package for pathway analysis in scRNA-seq data
  ☆75Updated 10 months ago
• harbourlab / uphyloplot2
  Draw phylogenetic trees of tumor evolution
  ☆80Updated last year
• JackieHanLab / SenCID
  Senescent Cell Identification
  ☆42Updated last year
• icbi-lab / luca
  Single-cell Lung Cancer Atlas with 1.2M cells
  ☆64Updated 5 months ago
• BlishLab / scriabin
  Analysis of cell-cell communication at single-cell resolution
  ☆101Updated 10 months ago
• prabhakarlab / Banksy
  BANKSY: spatial clustering
  ☆117Updated 2 weeks ago