Alternatives and similar repositories for FlowKit:

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

• fish-quant / big-fish-examples
  Notebooks to illustrate how BigFISH is working.
  ☆13Updated 2 years ago
• cytoflow / cytoflow
  A Python toolbox for quantitative, reproducible flow cytometry analysis
  ☆176Updated last week
• scverse / scirpy
  A scanpy extension to analyse single-cell TCR and BCR data.
  ☆224Updated this week
• saezlab / decoupler-py
  Python package to perform enrichment analysis from omics data.
  ☆176Updated 2 weeks ago
• theislab / diffxpy
  Differential expression analysis for single-cell RNA-seq data.
  ☆195Updated last year
• scverse / rapids_singlecell
  Rapids_singlecell: A GPU-accelerated tool for scRNA analysis. Offers seamless scverse compatibility for efficient single-cell data proces…
  ☆168Updated this week
• scverse / pytometry
  Flow & mass cytometry analytics.
  ☆43Updated this week
• cytomining / pycytominer
  Python package for processing image-based profiling data
  ☆85Updated last week
• whitews / FlowIO
  A Python library for reading and writing Flow Cytometry Standard (FCS) files
  ☆43Updated 6 months ago
• spacetx / starfish
  starfish: unified pipelines for image-based transcriptomics
  ☆230Updated 3 weeks ago
• taborlab / FlowCal
  Python Flow Cytometry Calibration Library
  ☆50Updated 6 months ago
• theislab / scib
  Benchmarking analysis of data integration tools
  ☆325Updated 2 weeks ago
• burtonrj / CytoPy
  A data-centric flow/mass cytometry automated analysis framework
  ☆38Updated last week
• scverse / muon
  muon is a multimodal omics Python framework
  ☆224Updated 2 weeks ago
• Teichlab / celltypist
  A tool for semi-automatic cell type classification
  ☆330Updated last month
• gustaveroussy / sopa
  Technology-invariant pipeline for spatial omics analysis that scales to millions of cells (Xenium / Visium HD / MERSCOPE / CosMx / PhenoC…
  ☆157Updated this week
• labsyspharm / scimap
  Spatial Single-Cell Analysis Toolkit
  ☆83Updated this week
• saezlab / pypath
  Python module for prior knowledge integration. Builds databases of signaling pathways, enzyme-substrate interactions, complexes, annotat…
  ☆137Updated 2 months ago
• velocyto-team / velocyto.py
  RNA velocity estimation in Python
  ☆164Updated last year
• bionumpy / bionumpy
  Python library for array programming on biological datasets. Documentation available at: https://bionumpy.github.io/bionumpy/
  ☆278Updated 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…
  ☆57Updated 10 months ago
• theislab / scarches
  Reference mapping for single-cell genomics
  ☆348Updated 2 weeks ago
• fish-quant / big-fish
  Toolbox for the analysis of smFISH images.
  ☆58Updated last year
• genialis / RNAnorm
  Normalization of RNA-seq gene expression
  ☆81Updated last year
• mousepixels / sanbomics
  bioinformatics plotting and tools
  ☆54Updated 7 months ago
• liulab-dfci / TRUST4
  TCR and BCR assembly from RNA-seq data
  ☆293Updated 3 weeks ago
• digitalcytometry / ecotyper
  EcoTyper is a machine learning framework for large-scale identification of cell states and cellular ecosystems from gene expression data.
  ☆192Updated 10 months ago
• zktuong / dandelion
  dandelion - A single cell BCR/TCR V(D)J-seq analysis package for 10X Chromium 5' data
  ☆112Updated last week
• mortazavilab / PyWGCNA
  PyWGCNA is a Python package designed to do Weighted Gene Correlation Network analysis (WGCNA)
  ☆230Updated 2 months ago
• slowkow / harmonypy
  🎼 Integrate multiple high-dimensional datasets with fuzzy k-means and locally linear adjustments.
  ☆209Updated 6 months ago