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 3 months ago
• 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
• klarman-cell-observatory / PowerAnalysisForSpatialOmics
  ☆25Updated 5 months ago
• BodenmillerGroup / cytomapper
  R package for visualization of highly multiplexed imaging data
  ☆32Updated 8 months ago
• nolanlab / CODEX
  Image processing software for CODEX: driftcompensation, deconvolution, uploading and segmentation
  ☆45Updated 2 years ago
• nolanlab / vortex
  VorteX Clustering Environment - Java graphical tool for single-cell analysis, clustering and visualization. Latest release:
  ☆34Updated last year
• BodenmillerGroup / imctools
  Tools to handle IMC data
  ☆23Updated 2 years ago
• walsh-quail-labs / IMC-Lung
  ☆16Updated last year
• klarman-cell-observatory / hdst
  ☆19Updated 5 years ago
• Nanostring-Biostats / InSituType
  An R package for performing cell typing in SMI and other single cell data
  ☆33Updated 3 months ago
• CamaraLab / STvEA
  Spatially-resolved Transcriptomics via Epitope Anchoring
  ☆18Updated 11 months ago
• camlab-bioml / astir
  astir | Automated cell identity from single-cell multiplexed imaging and proteomics 🖥🔬✨
  ☆52Updated 9 months ago
• nolanlab / NeighborhoodCoordination
  Code accompanying our manuscript "Coordinated cellular neighborhoods orchestrate antitumoral immunity at the colorectal cancer invasive f…
  ☆57Updated 4 months ago
• jfnavarro / st_analysis
  A toolset for analysis and visualisation of Spatial Transcriptomics datasets.
  ☆18Updated 3 years ago
• BodenmillerGroup / imcRtools
  An R package for handling and analysing imaging mass cytometry data
  ☆24Updated 4 months ago
• ElementoLab / imc
  A package for the analysis of Imaging Mass Cytometry data
  ☆13Updated 3 weeks ago
• ElementoLab / utag
  ☆34Updated 11 months ago
• immunitastx / monkeybread
  Analyzing cellular niches in spatial transcriptomics data
  ☆29Updated 4 months ago
• Vizgen / vizgen-postprocessing
  The Vizgen Post-processing Tool (VPT) enables users to reprocess and refine the single-cell results of MERSCOPE experiments.
  ☆27Updated 6 months ago
• nf-core / imcyto
  Image Mass Cytometry analysis pipeline
  ☆25Updated last month
• cancer-evolution / SPIAT
  Spatial Image Analysis of Tissues
  ☆15Updated 2 years ago
• AllenInstitute / cell_type_mapper
  Repository for storing prototype functionality implementations for the BKP
  ☆23Updated last week
• FridleyLab / spatialGE
  Methods for visualization and analysis of spatially-resolved gene expression
  ☆17Updated this week
• simslab / cluster_diffex2018
  scRNA-seq clustering, visualization, and differential expression pipeline from Sims Lab papers
  ☆21Updated 3 years ago
• TrigosTeam / SPIAT
  ☆22Updated this week
• damienArnol / svca
  ☆13Updated 6 years ago
• daniel-munro / imageCCA
  Code for preparing and running the imageCCA method.
  ☆20Updated 7 years ago
• JCVenterInstitute / FRmatch
  Cell type matching in single-cell RNA-sequencing data using FR-Match
  ☆19Updated 5 months ago
• SchapiroLabor / histoCAT
  Histology Topography Cytometry Analysis Toolbox
  ☆67Updated last year
• LTLA / scRNAseq
  Clone of the Bioconductor repository for the scRNAseq package.
  ☆25Updated 2 months ago