Alternatives and similar repositories for ComSeg

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

• SydneyBioX / BIDCell
  Biologically-informed deep learning for cell segmentation of subcelluar spatial transcriptomics data
  ☆45Updated last year
• labsyspharm / scimap
  Spatial Single-Cell Analysis Toolkit
  ☆99Updated 3 months ago
• plevritis-lab / CELESTA
  Automate unsupervised machine learning cell type identification using both protein expressions and cell spatial neighborhood information …
  ☆37Updated last year
• angelolab / ark-analysis
  Integrated pipeline for multiplexed image analysis
  ☆97Updated 6 months ago
• JEFworks-Lab / STalign
  Python tool for alignment of spatial transcriptomics (ST) data using diffeomorphic metric mapping
  ☆88Updated last year
• chenhcs / SCS
  Sub-cellular spatial transcriptomics Cell Segmentation
  ☆68Updated 2 years ago
• saeyslab / harpy
  Single-cell spatial proteomics analysis that makes you happy!
  ☆38Updated this week
• scverse / spatialdata-io
  ☆72Updated this week
• scverse / napari-spatialdata
  Interactive visualization of spatial omics data
  ☆67Updated this week
• MannLabs / scPortrait
  scPortrait is a scalable toolkit to generate single-cell representations from raw microscopy images
  ☆85Updated last week
• Vizgen / vizgen-postprocessing
  The Vizgen Post-processing Tool (VPT) enables users to reprocess and refine the single-cell results of MERSCOPE experiments.
  ☆33Updated last year
• YeoLab / bento-tools
  A Python toolkit for subcellular analysis of spatial transcriptomics data
  ☆83Updated 2 months ago
• EliHei2 / segger_dev
  a cutting-edge cell segmentation model specifically designed for single-molecule resolved spatial omics datasets. It addresses the challe…
  ☆76Updated last week
• gustaveroussy / sopa
  Technology-invariant pipeline for spatial omics analysis that scales to millions of cells (Xenium / Visium HD / MERSCOPE / CosMx / PhenoC…
  ☆232Updated this week
• MICS-Lab / novae
  Graph-based foundation model for spatial transcriptomics data. Zero-shot spatial domain inference, batch-effect correction, and many othe…
  ☆54Updated this week
• labsyspharm / cylinter
  An Interactive Image Segmentation Filter for Multiplex Microscopy
  ☆31Updated last month
• wollmanlab / JSTA
  ☆15Updated 3 years ago
• TissUUmaps / TissUUmaps
  TissUUmaps is a browser-based tool for fast visualization and exploration of millions of data points overlaying a tissue sample. TissUUma…
  ☆62Updated 4 months ago
• wanglab-broad / ClusterMap
  ClusterMap for multi-scale clustering analysis of spatial gene expression
  ☆46Updated 3 months ago
• ElementoLab / utag
  ☆39Updated last year
• CellProfiling / pipex
  A pipeline to transform images into valuable analysis items
  ☆15Updated 3 months ago
• HiDiHlabs / ssam
  ☆27Updated 11 months ago
• labsyspharm / mcmicro
  Multiple-choice microscopy pipeline
  ☆135Updated this week
• acycliq / pciSeq
  A probabilistic cell typing algorithm for spatial transcriptomics.
  ☆25Updated 2 weeks ago
• BodenmillerGroup / steinbock
  A toolkit for processing multiplexed tissue images
  ☆64Updated 2 weeks ago
• quentinblampey / spatialdata_xenium_explorer
  Interoperability between SpatialData and the Xenium Explorer
  ☆24Updated last year
• theislab / spapros
  Python package for Probe set selection for targeted spatial transcriptomics.
  ☆44Updated last week
• BodenmillerGroup / readimc
  Python package for reading imaging mass cytometry (IMC) files
  ☆16Updated last week
• sggao / celllens
  CellLENS: Cross-domain information fusion for enhanced cell population delineation in single-cell spatial-omics data
  ☆29Updated 2 months ago
• rendeirolab / LazySlide
  Accessible and interoperable whole slide image analysis
  ☆137Updated last week