Alternatives and similar repositories for phenoptr:

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

• Nanostring-Biostats / SpatialOmicsOverlay
  Tools for analyzing data on the image from NanoString GeoMx Digital Spatial Profiler (DSP).
  ☆18Updated last week
• nolanlab / SpatialScore
  R script for calculating the SpatialScore as described in our manuscript: "Immune cell topography predicts response to PD-1 blockade in c…
  ☆14Updated 3 years ago
• BodenmillerGroup / cytomapper
  R package for visualization of highly multiplexed imaging data
  ☆32Updated 10 months ago
• klarman-cell-observatory / PowerAnalysisForSpatialOmics
  ☆26Updated 7 months ago
• BodenmillerGroup / imctools
  Tools to handle IMC data
  ☆23Updated 3 years ago
• TrigosTeam / SPIAT
  ☆23Updated last month
• klarman-cell-observatory / hdst
  ☆19Updated 5 years ago
• nolanlab / CODEX
  Image processing software for CODEX: driftcompensation, deconvolution, uploading and segmentation
  ☆47Updated 2 years ago
• BodenmillerGroup / imcRtools
  An R package for handling and analysing imaging mass cytometry data
  ☆26Updated 6 months ago
• ElementoLab / utag
  ☆35Updated last year
• FridleyLab / spatialGE
  Methods for visualization and analysis of spatially-resolved gene expression
  ☆17Updated this week
• walsh-quail-labs / IMC-Lung
  ☆16Updated 2 years ago
• Nanostring-Biostats / InSituType
  An R package for performing cell typing in SMI and other single cell data
  ☆34Updated 4 months ago
• CamaraLab / STvEA
  Spatially-resolved Transcriptomics via Epitope Anchoring
  ☆18Updated last year
• nf-core / imcyto
  Image Mass Cytometry analysis pipeline
  ☆25Updated this week
• miccec / GBMstates
  Scripts from the GBM cellular states paper
  ☆18Updated 4 years ago
• nolanlab / vortex
  VorteX Clustering Environment - Java graphical tool for single-cell analysis, clustering and visualization. Latest release:
  ☆34Updated 2 years ago
• BodenmillerGroup / IMCDataAnalysis
  R based workflow for multiplexed imaging data
  ☆32Updated last year
• ElementoLab / imc
  A package for the analysis of Imaging Mass Cytometry data
  ☆13Updated 2 months ago
• theMILOlab / SPATA
  SPATA Package for spatial gene expression analysis
  ☆22Updated 3 years ago
• SchapiroLabor / histoCAT
  Histology Topography Cytometry Analysis Toolbox
  ☆67Updated last year
• jbergenstrahle / STUtility
  ☆51Updated 2 years ago
• BiomedicalMachineLearning / Spacell
  ☆25Updated 5 years ago
• cancer-evolution / SPIAT
  Spatial Image Analysis of Tissues
  ☆15Updated 2 years ago
• Vizgen / vizgen-postprocessing
  The Vizgen Post-processing Tool (VPT) enables users to reprocess and refine the single-cell results of MERSCOPE experiments.
  ☆27Updated 7 months ago
• pachterlab / concordex
  Identification of spatial homogeneous regions
  ☆20Updated 3 months ago
• MargoKapustina / XeniumSpatialAnalysis
  R-based Xenium Spatial Analysis Toolkit to assess gene expression gradients
  ☆17Updated this week
• nolanlab / NeighborhoodCoordination
  Code accompanying our manuscript "Coordinated cellular neighborhoods orchestrate antitumoral immunity at the colorectal cancer invasive f…
  ☆57Updated 6 months ago
• camlab-bioml / astir
  astir | Automated cell identity from single-cell multiplexed imaging and proteomics 🖥🔬✨
  ☆52Updated 11 months ago
• raphael-group / STARCH
  Spatial Transcriptomics Algorithm Reconstructing Copy-number Heterogeneity
  ☆27Updated 9 months ago