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@AUMC-HEMA

Amsterdam UMC Hematology Department

Code and resources from the Hematology Department at Amsterdam UMC
README.md 
Amsterdam UMC Hematology Department
┣━━ 📦 Open Source Packages
┃   ┣━━ MSGMM - Multi-sample Gaussian mixture models
┃   ┗━━ CytoTools - Internal R utilities package for cytometry data
┣━━ 🔬 Manuscripts
┃   ┣━━ imputation-manuscript - Imputation of cytometry data (Mocking et al., 2023)
┃   ┣━━ cMRD-manuscript - Computational MRD assessment in AML (Mocking et al., 2024)
┃   ┗━━ cMRD-review - Review of computational MRD assessment in AML (Mocking et al., 2025)
┗━━ 👨‍💻 Contributors
    ┣━━ 👨‍💻 Staff scientist
    ┃   ┗━━ Costa Bachas - Assistant professor
    ┣━━ 👨‍💻 PhD students
    ┃   ┣━━ Tim Mocking - Computational analysis of myeloid malignancies
    ┃   ┣━━ Tom Reuvekamp - Therapy dependent leukemic stem cell dynamics in acute myeloid leukemia
    ┃   ┣━━ Lukas Haaksma - Advanced measurable residual disease modeling in acute myeloid leukemia
    ┃   ┣━━ Kasper Croese - Implementation of measurable residual disease assessment in acute myeloid leukemia
    ┃   ┣━━ Nils Evander - Novel therapeutic strategies in acute leukemia
    ┃   ┣━━ Pakize Ak - Implications of Tyrosine Kinase Inhibitor discontinuation in Chronic Myeloid Leukemia
    ┃   ┣━━ Mai Huong Pham - Drug reponse modeling in acute leukemia
    ┃   ┗━━ Felix Zwolle - Computational analysis of myeloid malignancies 
    ┣━━ 👨‍💻 Students
    ┃   ┣━━ Marry Lin - Intern MSc. Biomedical Sciences
    ┃   ┗━━ Felix Zwolle - Intern MSc. Bioinformatics
    ┗━━ 👨‍💻 Alumni
        ┣━━ Eirini Papavasileiou - Intern MSc. Bioinformatics
        ┣━━ Lok Lam Ngai - PhD student
        ┣━━ Jesse Tettero -  PhD student
        ┣━━ Philip Rutten - Postdoc
        ┣━━ Dana Allen - Intern MSc. Bioinformatics
        ┗━━ Yejin Park - Intern MSc. Bioinformatics

Popular repositories Loading

  1. CytoScan CytoScan Public

    Automated detection of technical anomalies in cytometry data

    R 4

  2. cMRD-manuscript cMRD-manuscript Public

    Code used for computational detection of MRD in AML using flow cytometry data.

    Jupyter Notebook 3

  3. CytoTools CytoTools Public

    A small R package containing useful R functions for cytometry data for internal use.

    R 2

  4. MSGMM MSGMM Public

    The multi-sample Gaussian mixture model (MSGMM) is a clustering model adapted to fitting multiple samples simultaneously using the EM algorithm.

    R 2

  5. imputation-manuscript imputation-manuscript Public

    This repository contains the code used in our benchmark of imputation tools for flow cytometry data.

    Jupyter Notebook 1

  6. .github .github Public

    1

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