Alternatives and similar repositories for SpaceM

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

• klarman-cell-observatory / PowerAnalysisForSpatialOmics
  ☆30Updated last year
• Nanostring-Biostats / SpatialOmicsOverlay
  Tools for analyzing data on the image from NanoString GeoMx Digital Spatial Profiler (DSP).
  ☆23Updated 2 months ago
• metaspace2020 / metaspace-converter
  Download and Convert METASPACE datasets to common formats such as AnnData or SpatialData
  ☆12Updated last year
• saeyslab / napari-sparrow
  https://sparrow-pipeline.readthedocs.io/en/latest/
  ☆33Updated 2 weeks ago
• phipsonlab / SuperCellCyto
  SuperCell for Cytometry data
  ☆13Updated last month
• broadchenf / Slideseq
  ☆11Updated 6 years ago
• miti-consortium / MITI
  Minimum Information about Tissue Imaging
  ☆21Updated 2 years ago
• marcovito / sma
  ☆15Updated 2 years ago
• ZhuangLab / MERlin
  MERFISH decoding software
  ☆26Updated 3 months ago
• ciccalab / SIMPLI
  SIMPLI is a highly configurable pipeline for the analysis of multiplexed imaging data.
  ☆39Updated 2 months ago
• theislab / interactive_plotting
  ☆22Updated 5 years ago
• stevexniu / spots
  Statistical analysis for spatial omics data
  ☆11Updated 3 years ago
• camlab-bioml / astir
  astir | Automated cell identity from single-cell multiplexed imaging and proteomics 🖥🔬✨
  ☆56Updated 5 months ago
• akoyabio / phenoptr
  Helper functions for working with inForm data.
  ☆19Updated 3 years ago
• UCLouvain-CBIO / scp
  Single cell proteomics data processing
  ☆29Updated last month
• nolanlab / SpatialScore
  R script for calculating the SpatialScore as described in our manuscript: "Immune cell topography predicts response to PD-1 blockade in c…
  ☆16Updated 4 years ago
• SpatialTranscriptomicsResearch / st_viewer
  A GUI tool for easy and smooth visualisation and analysis of Spatial Transcriptomics datasets
  ☆15Updated 4 years ago
• Nanostring-Biostats / InSituType
  An R package for performing cell typing in SMI and other single cell data
  ☆43Updated 6 months ago
• SydneyBioX / scFeatures
  ☆14Updated 2 months ago
• BiomedicalMachineLearning / Spacell
  ☆27Updated 6 years ago
• giovp / spatialdata-sandbox
  ☆13Updated last month
• immunitastx / monkeybread
  Analyzing cellular niches in spatial transcriptomics data
  ☆33Updated last year
• PreibischLab / STIM
  Library for managing, storage, viewing, and working with spatial transcriptomics data using Imglib2, N5, BigDataViewer and Fiji.
  ☆29Updated 6 months ago
• tabdelaal / SIRV
  Spatial RNA velocity
  ☆10Updated last year
• HiDiHlabs / SpatialLeiden
  Implementation of multiplex Leiden for analysis of spatial omics data
  ☆14Updated last week
• quon-titative-biology / scAlign
  A deep learning-based tool for alignment and integration of single cell genomic data across multiple datasets, species, conditions, batch…
  ☆39Updated 4 years ago
• yozhikoff / segmentation
  End-to-end pipeline for segmenting cell nuclei on histology slides
  ☆16Updated 3 years ago
• jranek / delve
  Feature selection for preserving biological trajectories in single-cell data
  ☆20Updated 6 months ago
• Feanor007 / MESA
  A python package for Multiomics and Ecological Spatial Analysis (MESA)
  ☆22Updated 8 months ago
• theislab / troutpy
  Package for the analysis of Transcripts outside segmented cells in ST data
  ☆21Updated this week