Alternatives and similar repositories for Nimbus-Inference:

Users that are interested in Nimbus-Inference are comparing it to the libraries listed below

• KerenLab / CellSighter
  ☆30Updated last year
• scverse / spatialdata-io
  ☆48Updated this week
• scverse / spatialdata-notebooks
  ☆41Updated this week
• labsyspharm / cylinter
  An Interactive Image Segmentation Filter for Multiplex Microscopy
  ☆28Updated 2 weeks ago
• angelolab / ark-analysis
  Integrated pipeline for multiplexed image analysis
  ☆80Updated 3 months ago
• scverse / napari-spatialdata
  Interactive visualization of spatial omics data
  ☆48Updated this week
• fish-quant / ComSeg
  comseg
  ☆18Updated 2 weeks ago
• ciccalab / SIMPLI
  SIMPLI is a highly configurable pipeline for the analysis of multiplexed imaging data.
  ☆34Updated last year
• YeoLab / bento-tools
  A Python toolkit for subcellular analysis of spatial transcriptomics data
  ☆74Updated last month
• SydneyBioX / BIDCell
  Biologically-informed deep learning for cell segmentation of subcelluar spatial transcriptomics data
  ☆38Updated 7 months ago
• HiDiHlabs / ssam
  ☆27Updated 4 months ago
• labsyspharm / scimap
  Spatial Single-Cell Analysis Toolkit
  ☆85Updated 3 weeks ago
• camlab-bioml / astir
  astir | Automated cell identity from single-cell multiplexed imaging and proteomics 🖥🔬✨
  ☆52Updated 8 months ago
• JEFworks-Lab / STalign
  Python tool for alignment of spatial transcriptomics (ST) data using diffeomorphic metric mapping
  ☆71Updated last year
• chenhcs / SCS
  Sub-cellular spatial transcriptomics Cell Segmentation
  ☆60Updated last year
• angelolab / Nimbus
  ☆16Updated 6 months ago
• ElementoLab / utag
  ☆34Updated 10 months ago
• vitessce / vitessce-python
  Python API and Jupyter widget for Vitessce
  ☆43Updated 2 weeks ago
• yuqiyuqitan / SPACEc
  ☆25Updated this week
• quentinblampey / spatialdata_xenium_explorer
  Interoperability between SpatialData and the Xenium Explorer
  ☆18Updated 6 months ago
• theislab / graphcompass
  GraphCompass: Graph Comparison Tools for Differential Analyses in Spatial Systems
  ☆35Updated last month
• saeyslab / harpy
  https://harpy.readthedocs.io/en/latest/
  ☆15Updated last week
• acycliq / pciSeq
  A probabilistic cell typing algorithm for spatial transcriptomics.
  ☆23Updated this week
• Vizgen / vizgen-postprocessing
  The Vizgen Post-processing Tool (VPT) enables users to reprocess and refine the single-cell results of MERSCOPE experiments.
  ☆25Updated 5 months ago
• theislab / ncem
  Learning cell communication from spatial graphs of cells
  ☆105Updated last year
• mahmoodlab / MAPS
  Machine learning for Analysis of Proteomics in Spatial biology - Nature Communications
  ☆50Updated 11 months ago
• scverse / spatialdata-plot
  Static plotting for spatialdata
  ☆45Updated this week
• PreibischLab / STIM
  Library for managing, storage, viewing, and working with spatial transcriptomics data using Imglib2, N5, BigDataViewer and Fiji.
  ☆26Updated 3 weeks ago
• giovp / spatialdata-sandbox
  ☆11Updated last week
• UFISH-Team / U-FISH
  Deep learning based spot detection for FISH images.
  ☆21Updated 6 months ago