Alternatives and similar repositories for scPortrait

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

• scverse / napari-spatialdata
  Interactive visualization of spatial omics data
  ☆58Updated last week
• labsyspharm / cylinter
  An Interactive Image Segmentation Filter for Multiplex Microscopy
  ☆30Updated 4 months ago
• sagar87 / spatialproteomics
  Spatialproteomics is a light weight wrapper around xarray with the intention to facilitate the data exploration and analysis of highly mu…
  ☆27Updated this week
• ciccalab / SIMPLI
  SIMPLI is a highly configurable pipeline for the analysis of multiplexed imaging data.
  ☆37Updated last year
• saeyslab / harpy
  Single-cell spatial proteomics analysis that makes you happy!
  ☆28Updated this week
• scverse / spatialdata-io
  ☆62Updated last week
• HelenaLC / SpatialData
  ☆17Updated last week
• GuignardLab / napari-sc3D-viewer
  A plugin to visualise 3D spatial single cell omics
  ☆22Updated last year
• VasylVaskivskyi / microaligner
  Image registration (alignment) software for large microscopy images
  ☆25Updated last year
• schienstockd / cecelia
  Framework for image and flow cytometry analysis
  ☆26Updated 3 weeks ago
• scverse / conference-2024
  Slides and Notebooks for scverse 2024
  ☆17Updated 8 months ago
• labsyspharm / scimap
  Spatial Single-Cell Analysis Toolkit
  ☆91Updated 2 weeks ago
• scverse / spatialdata-plot
  Static plotting for spatialdata
  ☆58Updated last week
• HiDiHlabs / ssam
  ☆28Updated 7 months ago
• hubmapconsortium / spatial-transcriptomics-pipeline
  ☆29Updated last year
• CellProfiling / pipex
  A pipeline to transform images into valuable analysis items
  ☆13Updated this week
• acycliq / pciSeq
  A probabilistic cell typing algorithm for spatial transcriptomics.
  ☆23Updated this week
• vitessce / vitessce-python
  Python API and Jupyter widget for Vitessce
  ☆46Updated 2 weeks ago
• YeoLab / bento-tools
  A Python toolkit for subcellular analysis of spatial transcriptomics data
  ☆79Updated 2 months ago
• saramcardle / FS2K
  Files associated with the From Samples To Knowledge 2025 QuPath training course
  ☆12Updated last month
• nf-core / mcmicro
  An end-to-end processing pipeline that transforms multi-channel whole-slide images into single-cell data.
  ☆15Updated last month
• zjniu / Piscis
  An automatic deep learning algorithm for spot detection in fluorescence microscopy images.
  ☆21Updated this week
• theislab / spapros
  Python package for Probe set selection for targeted spatial transcriptomics.
  ☆37Updated 6 months ago
• fish-quant / big-fish
  Toolbox for the analysis of smFISH images.
  ☆62Updated last year
• Vizgen / vizgen-postprocessing
  The Vizgen Post-processing Tool (VPT) enables users to reprocess and refine the single-cell results of MERSCOPE experiments.
  ☆27Updated 8 months ago
• KerenLab / CellSighter
  ☆32Updated last year
• fish-quant / ComSeg
  comseg
  ☆20Updated 3 months ago
• giovp / spatialdata-sandbox
  ☆13Updated last month
• saeyslab / napari-sparrow
  https://sparrow-pipeline.readthedocs.io/en/latest/
  ☆27Updated last week
• klarman-cell-observatory / PowerAnalysisForSpatialOmics
  ☆27Updated 7 months ago