Alternatives and similar repositories for CytoTable

Users that are interested in CytoTable 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…
  ☆38Updated last month
• MannLabs / scPortrait
  scPortrait is a scalable toolkit to generate single-cell representations from raw microscopy images
  ☆93Updated last month
• DistributedScience / Distributed-CellProfiler
  Run encapsulated docker containers with CellProfiler in the Amazon Web Services infrastructure.
  ☆43Updated 3 weeks ago
• broadinstitute / cell-health
  Predicting Cell Health with Morphological Profiles
  ☆38Updated 3 years ago
• camlab-bioml / astir
  astir | Automated cell identity from single-cell multiplexed imaging and proteomics 🖥🔬✨
  ☆57Updated 4 months ago
• burtonrj / CytoPy
  A data-centric flow/mass cytometry automated analysis framework
  ☆42Updated 9 months ago
• DendrouLab / panpipes
  Multi-modal single cell analysis pipelines
  ☆59Updated this week
• scverse / spatialdata-notebooks
  ☆61Updated last week
• immunitastx / monkeybread
  Analyzing cellular niches in spatial transcriptomics data
  ☆31Updated 11 months ago
• carpenter-singh-lab / 2022_Haghighi_NatureMethods
  High-Dimensional Gene Expression and Morphology Profiles of Cells across 28,000 Genetic and Chemical Perturbations
  ☆51Updated 2 months ago
• Feanor007 / MESA
  A python package for Multiomics and Ecological Spatial Analysis (MESA)
  ☆21Updated 6 months ago
• saeyslab / FlowSOM_Python
  The complete FlowSOM package known from R, now available in Python!
  ☆23Updated last week
• whitews / FlowIO
  A Python library for reading and writing Flow Cytometry Standard (FCS) files
  ☆53Updated 5 months ago
• czi-ai / transcriptformer
  ☆87Updated 2 months ago
• ciccalab / SIMPLI
  SIMPLI is a highly configurable pipeline for the analysis of multiplexed imaging data.
  ☆38Updated last month
• saezlab / corneto
  Unified knowledge-driven network inference from omics data
  ☆85Updated this week
• angelolab / pixie
  Pixie pipeline described in Liu et al., Robust phenotyping of highly multiplexed tissue imaging data using pixel-level clustering
  ☆11Updated 2 years ago
• haniffalab / webatlas-app
  An application to display spatial and single-cell experiment data. Built in React, on the Vitessce framework.
  ☆14Updated 2 years ago
• hubmapconsortium / spatial-transcriptomics-pipeline
  ☆29Updated last year
• NygenAnalytics / CyteType
  Multi-agent driven cell type annotation for single-cell RNA-Seq data stored in Anndata format
  ☆46Updated last month
• scverse / spatialdata-io
  ☆74Updated this week
• cytomining / pycytominer
  Python package for processing image-based profiling data
  ☆124Updated 2 weeks ago
• klarman-cell-observatory / PowerAnalysisForSpatialOmics
  ☆29Updated last year
• metaspace2020 / metaspace-converter
  Download and Convert METASPACE datasets to common formats such as AnnData or SpatialData
  ☆11Updated last year
• schienstockd / cecelia
  Framework for image and flow cytometry analysis
  ☆30Updated 3 weeks ago
• scverse / pytometry
  Flow & mass cytometry analytics.
  ☆55Updated last week
• cantinilab / Mowgli
  Single-cell multi-omics integration using Optimal Transport
  ☆47Updated 2 months ago
• YeoLab / bento-tools
  A Python toolkit for subcellular analysis of spatial transcriptomics data
  ☆84Updated 3 months ago
• haniffalab / webatlas-pipeline
  A data pipeline built in Nextflow to process spatial and single-cell experiment data for visualisation in WebAtlas
  ☆65Updated 3 months ago
• vitessce / vitessce-python
  Python API and Jupyter widget for Vitessce
  ☆56Updated last week