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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. MungeSumstats MungeSumstats Public

    Rapid standardisation and quality control of GWAS or QTL summary statistics

    R 69 15

  2. rworkflows rworkflows Public

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

    HTML 69 7

  3. MAGMA_Celltyping MAGMA_Celltyping Public

    Find causal cell-types underlying complex trait genetics

    R 67 30

  4. orthogene orthogene Public

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

    R 39 4

  5. 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…

    HTML 14 4

  6. EpiCompare EpiCompare Public

    Comparison, benchmarking & QC of epigenetic datasets

    HTML 12 3

Repositories

Showing 10 of 79 repositories
  • 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 Jul 13, 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 5 MIT 0 0 0 Updated Jul 10, 2024
  • scKirby Public

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

    neurogenomics/scKirby’s past year of commit activity
    R 11 2 5 1 Updated Jul 5, 2024
  • CHAS Public template

    Cell type-specific Histone Acetylation Score

    neurogenomics/CHAS’s past year of commit activity
    R 3 GPL-3.0 1 2 0 Updated Jul 5, 2024
  • chromexpress Public

    Which epigenetic factors are the best predictors of gene expression? An analysis using ENCODE data.

    neurogenomics/chromexpress’s past year of commit activity
    Python 1 MIT 0 0 0 Updated Jul 5, 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
    Jupyter Notebook 6 0 7 (1 issue needs help) 0 Updated Jul 3, 2024
  • APOE_microglia Public
    neurogenomics/APOE_microglia’s past year of commit activity
    HTML 0 0 0 0 Updated Jun 26, 2024
  • MotifStats Public

    Package for integrating peak and motif positions

    neurogenomics/MotifStats’s past year of commit activity
    R 1 GPL-3.0 1 0 0 Updated Jun 13, 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 0 Updated Jun 11, 2024
  • gpt_hpo_annotations Public

    🏥🧑‍⚕️✨🤖✨👨‍⚕️🏥

    neurogenomics/gpt_hpo_annotations’s past year of commit activity
    JavaScript 1 GPL-3.0 0 1 0 Updated Jun 10, 2024
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