Alternatives and similar repositories for SpaceM

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

• klarman-cell-observatory / PowerAnalysisForSpatialOmics
  ☆27Updated 10 months ago
• Nanostring-Biostats / SpatialOmicsOverlay
  Tools for analyzing data on the image from NanoString GeoMx Digital Spatial Profiler (DSP).
  ☆21Updated 2 weeks ago
• marcovito / sma
  ☆13Updated last year
• theislab / interactive_plotting
  ☆22Updated 5 years ago
• broadchenf / Slideseq
  ☆11Updated 6 years ago
• metaspace2020 / metaspace-converter
  Download and Convert METASPACE datasets to common formats such as AnnData or SpatialData
  ☆11Updated last year
• phipsonlab / SuperCellCyto
  SuperCell for Cytometry data
  ☆12Updated 2 weeks ago
• BiomedicalMachineLearning / Spacell
  ☆26Updated 5 years ago
• saeyslab / napari-sparrow
  https://sparrow-pipeline.readthedocs.io/en/latest/
  ☆29Updated last week
• miti-consortium / MITI
  Minimum Information about Tissue Imaging
  ☆20Updated last year
• immunitastx / monkeybread
  Analyzing cellular niches in spatial transcriptomics data
  ☆30Updated 8 months ago
• ciccalab / SIMPLI
  SIMPLI is a highly configurable pipeline for the analysis of multiplexed imaging data.
  ☆38Updated 2 years ago
• ZhuangLab / MERlin
  MERFISH decoding software
  ☆26Updated 2 years ago
• camlab-bioml / astir
  astir | Automated cell identity from single-cell multiplexed imaging and proteomics 🖥🔬✨
  ☆53Updated last month
• akoyabio / phenoptr
  Helper functions for working with inForm data.
  ☆18Updated 3 years ago
• stevexniu / spots
  Statistical analysis for spatial omics data
  ☆10Updated 3 years ago
• jranek / delve
  Feature selection for preserving biological trajectories in single-cell data
  ☆19Updated 2 months ago
• const-ae / transformGamPoi
  Variance stabilizing transformation for Gamma Poisson distributed data
  ☆22Updated 2 years ago
• Nanostring-Biostats / InSituType
  An R package for performing cell typing in SMI and other single cell data
  ☆38Updated 2 months ago
• fmi-basel / glib-nature2018-materials
  Image Processing Package for the Paper "Self-organization and symmetry breaking in intestinal organoid development"
  ☆11Updated 4 years ago
• PreibischLab / STIM
  Library for managing, storage, viewing, and working with spatial transcriptomics data using Imglib2, N5, BigDataViewer and Fiji.
  ☆29Updated 2 months ago
• yozhikoff / segmentation
  End-to-end pipeline for segmenting cell nuclei on histology slides
  ☆16Updated 3 years ago
• SydneyBioX / scFeatures
  ☆13Updated 2 months ago
• nolanlab / SpatialScore
  R script for calculating the SpatialScore as described in our manuscript: "Immune cell topography predicts response to PD-1 blockade in c…
  ☆15Updated 3 years ago
• almaan / eggplant
  ☆22Updated 2 years ago
• Mr-Milk / SpatialTis
  Spatial analysis toolkit for single cell multiplexed tissue data
  ☆30Updated 11 months ago
• theislab / campa
  Conditional Autoencoders for Multiplexed Pixel Analysis
  ☆16Updated 2 years ago
• linnarsson-lab / pysmFISH
  Analysis of smFISH data
  ☆11Updated 6 years ago
• quentinblampey / spatialdata_xenium_explorer
  Interoperability between SpatialData and the Xenium Explorer
  ☆24Updated last year
• JEFworks-Lab / MERmaid
  WebGL-based viewer for spatially-resolved transcriptomics data
  ☆28Updated 2 years ago