Bayesian mixed-effect model to test differences in cell type proportions from single-cell data, in R
R scripts to reproduce analyses in our paper comparing clustering methods for high-dimensional cytometry data
R package for pre-processing of mass and flow cytometry data
Huge-scale, high-performance flow cytometry clustering in Julia
Official implementation of GateNet
R package for interactive visualization and analysis of single-cell data
Integration of multi-batch cytometry datasets
Accurate and Efficient Simulation of CyTOF data
Pipeline for analysing and visualising CyTOF datasets, with a focus on PTM signalling networks.
Keeps the figures and tables in Markdown lab notes in step with the R and Python notebooks that made them. Each save is recorded with its notebook and chunk, labelled Quarto chunks are re-run headlessly, and numbers in a write-up are checked against the saved outputs. Independent of the analysis library.
A Python package for dimension reduction and evaluation workflows with CyTOF data.
Interactive flow and mass cytometry gating in R for SingleCellExperiment and GatingSet objects. Browser version: https://gate-lab.github.io/
Single cell classification and feature engineering using DREMI scores
Analysis and visualisation single-cell proteomic data (CyTOF)
Browser-based software for manual gating of flow and mass cytometry data, with FlowJo workspace and Gating-ML exchange, compensation, statistics and figure export.
HDStIM: High Dimensional Stimulation Immune Mapping
Profilling of Peripheral Blood Mononuclear Cells using CyTOF
Fast auto-cleanup of CyTOF data
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