Alternatives and similar repositories for monorepo

Users that are interested in monorepo 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…
  ☆39Updated this week
• camlab-bioml / astir
  astir | Automated cell identity from single-cell multiplexed imaging and proteomics 🖥🔬✨
  ☆56Updated 5 months ago
• ciccalab / SIMPLI
  SIMPLI is a highly configurable pipeline for the analysis of multiplexed imaging data.
  ☆39Updated 2 months ago
• laminlabs / bionty
  Access & manage biological ontologies.
  ☆20Updated last week
• broadinstitute / cell-health
  Predicting Cell Health with Morphological Profiles
  ☆39Updated 3 years ago
• scverse / pytometry
  Flow & mass cytometry analytics.
  ☆58Updated last week
• chanzuckerberg / single-cell-curation
  Code and documentation for the curation of cellxgene datasets
  ☆50Updated this week
• scverse / mudata
  Multimodal Data (.h5mu) implementation for Python
  ☆104Updated last week
• DendrouLab / panpipes
  Multi-modal single cell analysis pipelines
  ☆61Updated last week
• Mr-Milk / SpatialTis
  Spatial analysis toolkit for single cell multiplexed tissue data
  ☆30Updated last year
• nf-core / mcmicro
  An end-to-end processing pipeline that transforms multi-channel whole-slide images into single-cell data.
  ☆27Updated 3 weeks ago
• MannLabs / scPortrait
  scPortrait is a scalable toolkit to generate single-cell representations from raw microscopy images
  ☆104Updated last week
• YeoLab / bento-tools
  A Python toolkit for subcellular analysis of spatial transcriptomics data
  ☆84Updated last month
• scverse / spatialdata-notebooks
  ☆62Updated this week
• haniffalab / webatlas-pipeline
  A data pipeline built in Nextflow to process spatial and single-cell experiment data for visualisation in WebAtlas
  ☆65Updated 5 months ago
• theislab / graphcompass
  GraphCompass: Graph Comparison Tools for Differential Analyses in Spatial Systems
  ☆38Updated 5 months ago
• HiDiHlabs / ssam
  ☆27Updated last year
• cytomining / CytoTable
  Transform CellProfiler and DeepProfiler data for processing image-based profiling readouts with Pycytominer and other Cytomining tools.
  ☆17Updated this week
• cytomining / copairs
  Find profile pairs and compute retrieval metrics between them.
  ☆21Updated 2 weeks ago
• immunitastx / monkeybread
  Analyzing cellular niches in spatial transcriptomics data
  ☆33Updated last year
• scverse / conference-2024
  Slides and Notebooks for scverse 2024
  ☆17Updated last year
• schienstockd / cecelia
  Framework for image and flow cytometry analysis
  ☆32Updated 2 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 4 months ago
• hubmapconsortium / spatial-transcriptomics-pipeline
  ☆29Updated last year
• vitessce / vitessce-python
  Python API and Jupyter widget for Vitessce
  ☆59Updated last month
• single-cell-data / SOMA
  A flexible and extensible API for annotated 2D matrix data stored in multiple underlying formats.
  ☆81Updated this week
• BodenmillerGroup / cytomapper
  R package for visualization of highly multiplexed imaging data
  ☆34Updated 6 months ago
• saeyslab / napari-sparrow
  https://sparrow-pipeline.readthedocs.io/en/latest/
  ☆33Updated this week
• CellProfiling / subcell-embed
  Codebase for training the SubCell models
  ☆17Updated last week
• netZoo / netbooks
  Netbooks is a JupyterHub catalog of use cases in gene regulatory network inference using netZoo methods..
  ☆45Updated 2 months ago