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@neurogenomics

neurogenomics

Neurogenomics Lab, UK Dementia Research Institute at Imperial College London
README.md

🧠🧬 About Us 🧬🧠

Our research focuses on simple questions about complex brain traits: where do they occur (in which cell types)? When do they occur (at which developmental stages)? How do they occur (which quantitative traits of cells are affected)? We aim to develop the methods and datasets required to enable these questions to be answered systematically for any trait for which well-powered genetic data is available.

New to the lab? See here for our labwiki, or here for our YouTube channel


Visit our lab website to learn more! 🔗

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  1. rworkflows rworkflows Public

    Continuous integration for R packages. 🔀 Automates testing ✅, documentation website building 📦, & containerised deployment 🐳.

    HTML 75 7

  2. MAGMA_Celltyping MAGMA_Celltyping Public

    Find causal cell-types underlying complex trait genetics

    R 72 31

  3. orthogene orthogene Public

    🧬 o r t h o g e n e 🧬✨✨✨✨✨✨✨ Interspecies gene mapping✨✨✨✨✨ 🦠 🔁 🌱 🔁 🌳 🔁 🍎 🔁 🍊 🔁 🪱 🔁 🪰 🔁 🐟 🔁 🦎 🔁 🐓 🔁 🦇 🔁 🐄 🔁 🐖 🔁 🐐 🔁 🐎 🔁 🐈 🔁 🐕 🔁 🐁 🔁 🐒 🔁 🦧 🔁 🦍 🔁 🏃‍♀️

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  4. reanalysis_Mathys_2019 reanalysis_Mathys_2019 Public

    A re-analysis of the [Single-cell transcriptomic analysis of Alzheimer’s disease](https://www.nature.com/articles/s41586-019-1195-2) using a standardised data processing and pseudobulk differential…

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  5. EpiCompare EpiCompare Public

    Comparison, benchmarking & QC of epigenetic datasets

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  6. scKirby scKirby Public

    Automated ingestion and conversion of various single-cell data formats, within and across species

    R 11 2

Repositories

Showing 10 of 84 repositories
  • neurogenomics-lab-website Public

    Website for the Skene Lab

    neurogenomics/neurogenomics-lab-website’s past year of commit activity
    TeX 3 MIT 4 0 0 Updated Dec 12, 2024
  • MSTExplorer Public

    Multi-Scale Target Explorer systematically identifies, prioritises, and visualises cell-type-specific gene therapy targets across the phenome.

    neurogenomics/MSTExplorer’s past year of commit activity
    R 1 1 3 1 Updated Dec 5, 2024
  • HPOExplorer Public

    Functions for working with the Human Phenotype Ontology data

    neurogenomics/HPOExplorer’s past year of commit activity
    R 4 1 1 1 Updated Dec 4, 2024
  • KGExplorer Public

    Import and analyse large-scale biomedical knowledge graphs and ontologies. 🕸️⚙️💻⚙️🕸️

    neurogenomics/KGExplorer’s past year of commit activity
    R 0 1 1 1 Updated Dec 4, 2024
  • MotifPeeker Public

    Benchmark Epigenomic Profiling Methods with Motif Enrichment as Key Metric

    neurogenomics/MotifPeeker’s past year of commit activity
    R 1 GPL-3.0 0 0 0 Updated Dec 2, 2024
  • MotifPeeker-reports Public

    Public archive of reports generated using MotifPeeker R package

    neurogenomics/MotifPeeker-reports’s past year of commit activity
    HTML 0 GPL-3.0 0 0 0 Updated Dec 2, 2024
  • EnformerCelltyping Public

    Enformer Celltyping is a tensorflow, multi-headed attention based model that incorporates distal effects of Deoxyribonucleic Acid (DNA) interactions to predict histone marks across diverse cell types.

    neurogenomics/EnformerCelltyping’s past year of commit activity
    Jupyter Notebook 11 MIT 0 0 0 Updated Nov 21, 2024
  • gpt_hpo_annotations Public

    🏥🧑‍⚕️✨🤖✨👨‍⚕️🏥

    neurogenomics/gpt_hpo_annotations’s past year of commit activity
    JavaScript 1 GPL-3.0 0 1 0 Updated Nov 15, 2024
  • rare_disease_celltyping Public

    Code, data and results associated with the "Rare diseases cell-typing" project.

    neurogenomics/rare_disease_celltyping’s past year of commit activity
    HTML 6 0 5 (1 issue needs help) 0 Updated Nov 10, 2024
  • APOE_microglia Public
    neurogenomics/APOE_microglia’s past year of commit activity
    HTML 0 GPL-3.0 0 0 0 Updated Oct 25, 2024
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