Alternatives and similar repositories for ssam:

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

• Vizgen / vizgen-postprocessing
  The Vizgen Post-processing Tool (VPT) enables users to reprocess and refine the single-cell results of MERSCOPE experiments.
  ☆27Updated 7 months ago
• labsyspharm / scimap
  Spatial Single-Cell Analysis Toolkit
  ☆90Updated 2 weeks ago
• JEFworks-Lab / STalign
  Python tool for alignment of spatial transcriptomics (ST) data using diffeomorphic metric mapping
  ☆77Updated last year
• klarman-cell-observatory / PowerAnalysisForSpatialOmics
  ☆26Updated 7 months ago
• saeyslab / harpy
  Single-cell spatial proteomics analysis that makes you happy!
  ☆27Updated this week
• camlab-bioml / astir
  astir | Automated cell identity from single-cell multiplexed imaging and proteomics 🖥🔬✨
  ☆52Updated 11 months ago
• hubmapconsortium / spatial-transcriptomics-pipeline
  ☆29Updated last year
• YeoLab / bento-tools
  A Python toolkit for subcellular analysis of spatial transcriptomics data
  ☆77Updated last month
• camlab-bioml / starling
  Segmentation error aware clustering for multiplexed imaging
  ☆17Updated 3 months ago
• scverse / spatialdata-io
  ☆60Updated last week
• dcjones / proseg
  Probabilistic cell segmentation for in situ spatial transcriptomics
  ☆72Updated this week
• ciccalab / SIMPLI
  SIMPLI is a highly configurable pipeline for the analysis of multiplexed imaging data.
  ☆37Updated last year
• quentinblampey / spatialdata_xenium_explorer
  Interoperability between SpatialData and the Xenium Explorer
  ☆21Updated 9 months ago
• plevritis-lab / CELESTA
  Automate unsupervised machine learning cell type identification using both protein expressions and cell spatial neighborhood information …
  ☆35Updated 11 months ago
• saeyslab / napari-sparrow
  https://sparrow-pipeline.readthedocs.io/en/latest/
  ☆26Updated this week
• scverse / spatialdata-notebooks
  ☆53Updated last week
• haniffalab / webatlas-pipeline
  A data pipeline built in Nextflow to process spatial and single-cell experiment data for visualisation in WebAtlas
  ☆61Updated last week
• scverse / napari-spatialdata
  Interactive visualization of spatial omics data
  ☆53Updated last week
• ElementoLab / utag
  ☆35Updated last year
• CSOgroup / cellcharter
  A Python package for the identification, characterization and comparison of spatial clusters from spatial -omics data.
  ☆119Updated last week
• wollmanlab / JSTA
  ☆14Updated 3 years ago
• seqscope / ficture
  ☆34Updated 2 weeks ago
• theislab / spapros
  Python package for Probe set selection for targeted spatial transcriptomics.
  ☆36Updated 5 months ago
• SydneyBioX / BIDCell
  Biologically-informed deep learning for cell segmentation of subcelluar spatial transcriptomics data
  ☆42Updated 9 months ago
• dpeerlab / ENVI
  ☆48Updated last month
• nolanlab / CODEX
  Image processing software for CODEX: driftcompensation, deconvolution, uploading and segmentation
  ☆47Updated 2 years ago
• Feanor007 / MESA
  A python package for Multiomics and Ecological Spatial Analysis (MESA)
  ☆16Updated 3 weeks ago
• nolanlab / TissueSchematics
  Code accompanying the manuscript "Tissue Schematics map the specialization of immune tissue motifs and their appropriation by tumors"
  ☆10Updated 2 years ago
• acycliq / pciSeq
  A probabilistic cell typing algorithm for spatial transcriptomics.
  ☆23Updated last week
• BodenmillerGroup / cytomapper
  R package for visualization of highly multiplexed imaging data
  ☆32Updated 10 months ago