Alternatives and similar repositories for spatialone-pipeline:

Users that are interested in spatialone-pipeline are comparing it to the libraries listed below

• raphael-group / CalicoST
  Inferring allele-specific copy number aberrations and tumor phylogeography from spatially resolved transcriptomics
  ☆34Updated last week
• YosefLab / mrvi_archive
  Multi-resolution Variational Inference
  ☆22Updated 3 weeks ago
• zijianni / SpotClean
  R package for decontaminating the spot swapping effect and recovering true expression in spatial transcriptomics data
  ☆31Updated 10 months ago
• kaishumason / NicheDE
  NicheDE is a method that detects context dependent changes in gene expression in spatial transcriptomic data.
  ☆17Updated 6 months ago
• Teichlab / Genes2Genes
  Aligning gene expression trajectories of single-cell reference and query systems
  ☆63Updated 6 months ago
• Teichlab / sctk
  ☆36Updated 6 months ago
• HectorRDB / condiments
  Trajectory inference across multiple conditions with condiments: differential topology, progression, differentiation, and expression
  ☆28Updated 4 months ago
• StatBiomed / SpatialDM
  Spatial direct messaging detected by bivariate Moran
  ☆26Updated 3 months ago
• msraredon / NICHES
  Niche Interactions and Cellular Heterogeneity in Extracellular Signaling
  ☆52Updated 7 months ago
• Banovich-Lab / Spatial_PF
  ☆24Updated 2 months ago
• hernet / transcriptional-map-nk
  We describe a transcriptional reference map of human natural killer (NK) cells based on analysis of scRNA-seq data from both blood and ti…
  ☆9Updated 6 months ago
• Sanofi-Public / enact-pipeline
  Repository for ENACT pipeline for end-to-end analysis of Visium HD data
  ☆43Updated last week
• raphael-group / STARCH
  Spatial Transcriptomics Algorithm Reconstructing Copy-number Heterogeneity
  ☆26Updated 9 months ago
• BodenmillerGroup / imcRtools
  An R package for handling and analysing imaging mass cytometry data
  ☆26Updated 5 months ago
• JinmiaoChenLab / scTM
  scTM: A package for topic modelling in transcriptomics data
  ☆20Updated 11 months ago
• wanglab-broad / CAST
  CAST package
  ☆34Updated 6 months ago
• KlugerLab / DAseq
  ☆40Updated 4 years ago
• dchary / ucdeconvolve
  UniCell Deconvolve - Cloud Cell Type Deconvolution For Transcriptomic Data
  ☆24Updated last year
• jumphone / Vector
  Unsupervised Inference of Developmental Directions for Single Cells
  ☆21Updated last year
• saezlab / MOFAcellulaR
  R package to infer multicellular programs from single-cell data using multi-omics factor analysis (MOFA)
  ☆10Updated last year
• rargelaguet / mouse_organogenesis_10x_multiome_publication
  Code to reproduce the analysis of "Decoding gene regulation in the mouse embryo using single-cell multi-omics""
  ☆40Updated 2 years ago
• LiHongCSBLab / SOAPy
  ☆27Updated 2 months ago
• MarioniLab / StabMap
  Mosaic single cell data integration using non-overlapping features
  ☆37Updated 2 years ago
• Teichlab / Pan_fetal_immune
  Collection of scripts for analysis of pan fetal immune atlas
  ☆26Updated 2 years ago
• bsungwoo / spSeudoMap
  spSeudoMap: cell type mapping of spatial transcriptomics using unmatched single-cell RNA-seq data
  ☆12Updated 6 months ago
• phillipnicol / scDist
  Robust identification of perturbed cell types in single-cell RNA-seq data
  ☆31Updated 5 months ago
• welch-lab / cytosignal
  ☆17Updated last week
• JEFworks-Lab / CRAWDAD
  Cell-type Relationship Analysis Workflow Done Across Distances
  ☆31Updated 2 months ago
• KramannLab / visium_heart
  Spatial transcriptomics of heart tissue
  ☆20Updated 2 years ago
• QihuangZhang / CeLEry
  CeLEry: cell location recovery in single-cell RNA sequencing
  ☆34Updated 2 months ago