Alternatives and similar repositories for scPortrait

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

• sagar87 / spatialproteomics
  Spatialproteomics is a light weight wrapper around xarray with the intention to facilitate the data exploration and analysis of highly mu…
  ☆28Updated this week
• scverse / spatialdata-io
  ☆65Updated last week
• scverse / napari-spatialdata
  Interactive visualization of spatial omics data
  ☆64Updated last week
• saeyslab / harpy
  Single-cell spatial proteomics analysis that makes you happy!
  ☆34Updated last week
• labsyspharm / cylinter
  An Interactive Image Segmentation Filter for Multiplex Microscopy
  ☆31Updated 6 months ago
• YeoLab / bento-tools
  A Python toolkit for subcellular analysis of spatial transcriptomics data
  ☆80Updated last week
• labsyspharm / scimap
  Spatial Single-Cell Analysis Toolkit
  ☆94Updated last month
• vitessce / vitessce-python
  Python API and Jupyter widget for Vitessce
  ☆50Updated this week
• hubmapconsortium / spatial-transcriptomics-pipeline
  ☆29Updated last year
• GuignardLab / napari-sc3D-viewer
  A plugin to visualise 3D spatial single cell omics
  ☆22Updated last month
• HiDiHlabs / ssam
  ☆27Updated 9 months ago
• HelenaLC / SpatialData
  ☆17Updated 2 months ago
• saeyslab / napari-sparrow
  https://sparrow-pipeline.readthedocs.io/en/latest/
  ☆29Updated this week
• Vizgen / vizgen-postprocessing
  The Vizgen Post-processing Tool (VPT) enables users to reprocess and refine the single-cell results of MERSCOPE experiments.
  ☆27Updated 10 months ago
• scverse / spatialdata-plot
  Static plotting for spatialdata
  ☆62Updated last week
• ciccalab / SIMPLI
  SIMPLI is a highly configurable pipeline for the analysis of multiplexed imaging data.
  ☆38Updated 2 years ago
• scverse / conference-2024
  Slides and Notebooks for scverse 2024
  ☆17Updated 10 months ago
• EliHei2 / segger_dev
  a cutting-edge cell segmentation model specifically designed for single-molecule resolved spatial omics datasets. It addresses the challe…
  ☆74Updated last week
• scverse / spatialdata-notebooks
  ☆54Updated last week
• wanglab-broad / ClusterMap
  ClusterMap for multi-scale clustering analysis of spatial gene expression
  ☆45Updated last month
• angelolab / ark-analysis
  Integrated pipeline for multiplexed image analysis
  ☆93Updated 4 months ago
• theislab / spapros
  Python package for Probe set selection for targeted spatial transcriptomics.
  ☆39Updated 3 weeks ago
• schienstockd / cecelia
  Framework for image and flow cytometry analysis
  ☆28Updated last week
• klarman-cell-observatory / PowerAnalysisForSpatialOmics
  ☆27Updated 10 months ago
• acycliq / pciSeq
  A probabilistic cell typing algorithm for spatial transcriptomics.
  ☆24Updated last month
• giovp / spatialdata-sandbox
  ☆12Updated 3 months ago
• VasylVaskivskyi / microaligner
  Image registration (alignment) software for large microscopy images
  ☆25Updated last year
• rockdeme / chrysalis
  Powerful and lightweight package to identify tissue compartments in spatial transcriptomics datasets.
  ☆17Updated last month
• emanuega / MERlin
  MERlin is an extensible analysis pipeline applied to decoding MERFISH data
  ☆35Updated 3 years ago
• miti-consortium / MITI
  Minimum Information about Tissue Imaging
  ☆20Updated last year