Alternatives and similar repositories for spapros

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

• LouisFaure / scFates
  a scalable python suite for tree inference and advanced pseudotime analysis from scRNAseq data.
  ☆64Updated 2 weeks ago
• wanglab-broad / CAST
  CAST package
  ☆41Updated last year
• quentinblampey / spatialdata_xenium_explorer
  Interoperability between SpatialData and the Xenium Explorer
  ☆25Updated last year
• pachterlab / concordex
  Identification of spatial homogeneous regions
  ☆21Updated 2 months ago
• YeoLab / bento-tools
  A Python toolkit for subcellular analysis of spatial transcriptomics data
  ☆84Updated last month
• raphael-group / GASTON
  GASTON: deep learning algorithm learns "topography" of a tissue slice from spatial transcriptomics data
  ☆69Updated 3 weeks ago
• prabhakarlab / Banksy_py
  BANKSY: Spatial Clustering Algorithm that Unifies Cell-Typing and Tissue Domain Segmentation. Python package for spatial transcriptomics …
  ☆71Updated last month
• BiomedicalMachineLearning / stlearn_interactive
  Interactive applications of stlearn
  ☆15Updated 2 years ago
• theislab / troutpy
  Package for the analysis of Transcripts outside segmented cells in ST data
  ☆23Updated this week
• dpeerlab / ENVI
  ☆52Updated 2 months ago
• raphael-group / STARCH
  Spatial Transcriptomics Algorithm Reconstructing Copy-number Heterogeneity
  ☆29Updated last year
• earmingol / cell2cell
  User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins
  ☆67Updated last month
• theislab / multimil
  Weakly supervised learning uncovers phenotypic signatures in single-cell data
  ☆36Updated last week
• labsyspharm / scimap
  Spatial Single-Cell Analysis Toolkit
  ☆105Updated last week
• haniffalab / webatlas-pipeline
  A data pipeline built in Nextflow to process spatial and single-cell experiment data for visualisation in WebAtlas
  ☆65Updated 5 months ago
• raphael-group / paste2
  Probabilistic Alignment of Spatial Transcriptomics Experiments v.2
  ☆41Updated 9 months ago
• StatBiomed / SpatialDM
  Spatial direct messaging detected by bivariate Moran
  ☆32Updated 5 months ago
• saeyslab / harpy
  Single-cell spatial proteomics analysis that makes you happy!
  ☆48Updated last week
• simonwm / tacco
  TACCO: Transfer of Annotations to Cells and their COmbinations
  ☆62Updated 3 months ago
• saeyslab / napari-sparrow
  https://sparrow-pipeline.readthedocs.io/en/latest/
  ☆33Updated last week
• LiHongCSBLab / SOAPy
  ☆31Updated 10 months ago
• shuxiaoc / maxfuse
  ☆56Updated last year
• p-gueguen / Spatial_transcriptomics_tools
  List of Spatial Transcriptomics related Tools organized per category
  ☆97Updated last week
• nf-core / spatialxe
  ☆24Updated last month
• seqscope / ficture
  ☆42Updated 2 months ago
• Moldia / Xenium_benchmarking
  Code used to benchmark Xenium
  ☆72Updated last year
• NygenAnalytics / CyteType
  Multi-agent LLM driven cell type annotation for single-cell RNA-Seq data
  ☆92Updated 3 weeks ago
• YosefLab / mrvi_archive
  Multi-resolution Variational Inference
  ☆22Updated 2 weeks ago
• scverse / spatialdata-notebooks
  ☆62Updated last week
• JEFworks-Lab / STalign
  Python tool for alignment of spatial transcriptomics (ST) data using diffeomorphic metric mapping
  ☆93Updated 2 years ago