Alternatives and similar repositories for spatialGE

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

• QihuangZhang / CeLEry
  CeLEry: cell location recovery in single-cell RNA sequencing
  ☆35Updated 11 months ago
• wanglabtongji / CCI
  Evaluation of cell-cell interaction methods by integrating single-cell RNA sequencing data with spatial information
  ☆23Updated 3 years ago
• Nanostring-Biostats / InSituType
  An R package for performing cell typing in SMI and other single cell data
  ☆46Updated 7 months ago
• LiHongCSBLab / SOAPy
  ☆32Updated 10 months ago
• TrigosTeam / SPIAT
  ☆25Updated 10 months ago
• quadbio / organoid_regulomes
  Reproducibility code for the manuscript: 'Inferring and perturbing cell fate regulomes in human cerebral organoids
  ☆30Updated 2 years ago
• raphael-group / CalicoST
  Inferring allele-specific copy number aberrations and tumor phylogeography from spatially resolved transcriptomics
  ☆45Updated 5 months ago
• jbergenstrahle / STUtility
  ☆53Updated 2 years ago
• JEFworks-Lab / veloviz
  RNA-velocity informed embeddings for visualizing cellular trajectories
  ☆44Updated 3 years ago
• Sanofi-Public / spatialone-pipeline
  Spatial One
  ☆30Updated last year
• tudaga / LabelCorrection
  Python code for cross-condition label refinement in single-cell data with HiDDEN
  ☆14Updated last year
• wanglab-broad / CAST
  CAST package
  ☆42Updated last year
• jfnavarro / st_analysis
  A toolset for analysis and visualisation of Spatial Transcriptomics datasets.
  ☆18Updated 4 years ago
• bendemeo / shannonca
  Information-based dimensionality reduction
  ☆29Updated last year
• MarioniLab / StabMap
  Mosaic single cell data integration using non-overlapping features
  ☆37Updated 3 years ago
• walsh-quail-labs / IMC_Brain
  ☆20Updated 2 years ago
• klarman-cell-observatory / PowerAnalysisForSpatialOmics
  ☆30Updated last year
• StatBiomed / SpatialDM
  Spatial direct messaging detected by bivariate Moran
  ☆32Updated 6 months ago
• Winnie09 / Lamian
  ☆61Updated 4 months ago
• JEFworks-Lab / CRAWDAD
  Cell-type Relationship Analysis Workflow Done Across Distances
  ☆39Updated 2 months ago
• ding-lab / PanCan_snATAC_publication
  ☆19Updated last year
• raphael-group / paste2
  Probabilistic Alignment of Spatial Transcriptomics Experiments v.2
  ☆41Updated 10 months ago
• immunogenomics / cna
  Covarying neighborhood analysis (CNA) is a method for finding structure in- and conducting association analysis with multi-sample single-…
  ☆56Updated 7 months ago
• JEFworks-Lab / MERINGUE
  characterizing spatial gene expression heterogeneity in spatially resolved single-cell transcriptomics data with nonuniform cellular dens…
  ☆82Updated 3 years ago
• theislab / scArches-reproducibility
  Reproducing result from the paper
  ☆34Updated 4 years ago
• KChen-lab / bindSC
  Bi-order integration (in silico multi-omics data) of single cell RNA sequencing, single cell ATAC sequencing, spacial transcriptomics and…
  ☆39Updated 2 years ago
• jzhoulab / quasildr
  Quasilinear data representations for single-cell omics data analysis
  ☆43Updated 2 years ago
• AllenInstitute / scrattch.bigcat
  iterative clustering pipeline of big single cell datasets.
  ☆35Updated 4 months ago
• saezlab / MOFAcellulaR
  R package to infer multicellular programs from single-cell data using multi-omics factor analysis (MOFA)
  ☆12Updated 2 years ago
• CamaraLab / ConDecon
  R package: ConDecon is a clustering-independent deconvolution method for estimating cell abundances in bulk tissues using single-cell RNA…
  ☆13Updated last year