Alternatives and similar repositories for pytometry:

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

• theislab / prophet
  ☆28Updated last month
• scverse / mudata
  Multimodal Data (.h5mu) implementation for Python
  ☆87Updated this week
• emdann / milopy
  Python implementation of Milo for differential abundance testing on KNN graph
  ☆62Updated last year
• YosefLab / scib-metrics
  Accelerated, Python-only, single-cell integration benchmarking metrics
  ☆54Updated this week
• Novartis / cellxgene-gateway
  Cellxgene Gateway allows you to use the Cellxgene Server provided by the Chan Zuckerberg Institute (https://github.com/chanzuckerberg/cel…
  ☆58Updated 11 months ago
• YeoLab / bento-tools
  A Python toolkit for subcellular analysis of spatial transcriptomics data
  ☆74Updated last month
• chanzuckerberg / cellxgene-census
  CZ CELLxGENE Discover Census
  ☆95Updated this week
• lilab-bcb / harmony-pytorch
  ☆51Updated last year
• haniffalab / webatlas-pipeline
  A data pipeline built in Nextflow to process spatial and single-cell experiment data for visualisation in WebAtlas
  ☆52Updated this week
• theislab / spapros
  Python package for Probe set selection for targeted spatial transcriptomics.
  ☆33Updated 2 months ago
• saezlab / corneto
  Unified knowledge-driven network inference from omics data
  ☆31Updated last week
• chanzuckerberg / single-cell-curation
  Code and documentation for the curation of cellxgene datasets
  ☆40Updated this week
• wallet-maker / cytopus
  Single cell omics biology annotations
  ☆48Updated 3 weeks ago
• theislab / scTab
  ☆56Updated 5 months ago
• saezlab / decoupler-py
  Python package to perform enrichment analysis from omics data.
  ☆179Updated last week
• saketkc / pySCTransform
  Python package to perform normalization and variance-stabilization of single-cell data
  ☆23Updated 2 years ago
• brianhie / geosketch
  Geometry-preserving random sampling
  ☆78Updated 3 months ago
• LouisFaure / scFates
  a scalable python suite for tree inference and advanced pseudotime analysis from scRNAseq data.
  ☆50Updated last month
• mossjacob / pyslingshot
  Python implementation of the Slingshot pseudotime algorithm
  ☆58Updated 9 months ago
• DendrouLab / panpipes
  Multi-modal single cell analysis pipelines
  ☆58Updated this week
• earmingol / cell2cell
  User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins
  ☆59Updated 8 months ago
• Genentech / decima
  Decima is a Python library to train sequence models on single-cell RNA-seq data.
  ☆24Updated 4 months ago
• dcjones / proseg
  Probabilistic cell segmentation for in situ spatial transcriptomics
  ☆62Updated last week
• flatironinstitute / inferelator
  Task-based gene regulatory network inference using single-cell or bulk gene expression data conditioned on a prior network.
  ☆47Updated 7 months ago
• YosefLab / popV
  ☆69Updated this week
• BayraktarLab / cell2fate
  Inference of RNA velocity modules for prediction of cell fates and integration with spatial and regulatory models.
  ☆36Updated 5 months ago
• Teichlab / sctk
  ☆34Updated 4 months ago
• scverse / conference-2024
  Slides and Notebooks for scverse 2024
  ☆17Updated 4 months ago
• settylab / Mellon
  Non-parametric density inference for single-cell analysis.
  ☆65Updated this week
• Novartis / scar
  scAR (single-cell Ambient Remover) is a deep learning model for removal of the ambient signals in droplet-based single cell omics
  ☆52Updated 5 months ago