neurogenomics
Neurogenomics Lab, UK Dementia Research Institute at Imperial College London
United Kingdom
Pinned Repositories
EnformerCelltyping
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.
EpiCompare
Comparison, benchmarking & QC of epigenetic datasets
hierarchicell
An R package for simulating cell-type specific and hierarchical single-cell expression data
labwiki
Tips, intros, and documentation for the Neurogenomics Lab. :brain: 🧬
MAGMA_Celltyping
Find causal cell-types underlying complex trait genetics
orthogene
🧬 o r t h o g e n e 🧬✨✨✨✨✨✨✨ Interspecies gene mapping✨✨✨✨✨ 🦠 🔁 🌱 🔁 🌳 🔁 🍎 🔁 🍊 🔁 🪱 🔁 🪰 🔁 🐟 🔁 🦎 🔁 🐓 🔁 🦇 🔁 🐄 🔁 🐖 🔁 🐐 🔁 🐎 🔁 🐈 🔁 🐕 🔁 🐁 🔁 🐒 🔁 🦧 🔁 🦍 🔁 🏃♀️
rare_disease_celltyping
Code, data and results associated with the "Rare diseases cell-typing" project.
reanalysis_Mathys_2019
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 expression approach
rworkflows
Continuous integration for R packages. 🔀 Automates testing ✅, documentation website building 📦, & containerised deployment 🐳.
scKirby
Automated ingestion and conversion of various single-cell data formats, within and across species
neurogenomics's Repositories
neurogenomics/MAGMA_Celltyping
Find causal cell-types underlying complex trait genetics
neurogenomics/rworkflows
Continuous integration for R packages. 🔀 Automates testing ✅, documentation website building 📦, & containerised deployment 🐳.
neurogenomics/EpiCompare
Comparison, benchmarking & QC of epigenetic datasets
neurogenomics/EnformerCelltyping
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/scKirby
Automated ingestion and conversion of various single-cell data formats, within and across species
neurogenomics/labwiki
Tips, intros, and documentation for the Neurogenomics Lab. :brain: 🧬
neurogenomics/rare_disease_celltyping
Code, data and results associated with the "Rare diseases cell-typing" project.
neurogenomics/Kayaking
neurogenomics/HPOExplorer
Functions for working with the Human Phenotype Ontology data
neurogenomics/neurogenomics-lab-website
Website for the Skene Lab
neurogenomics/scFlow
Single-cell/nuclei RNA-seq analysis tools in R for a complete workflow.
neurogenomics/chromexpress
Which epigenetic factors are the best predictors of gene expression? An analysis using ENCODE data.
neurogenomics/gpt_hpo_annotations
🏥🧑⚕️✨🤖✨👨⚕️🏥
neurogenomics/MotifPeeker
Benchmark Epigenomic Profiling Methods with Motif Enrichment as Key Metric
neurogenomics/MotifStats
Package for integrating peak and motif positions
neurogenomics/MSTExplorer
Multi-Scale Target Explorer systematically identifies, prioritises, and visualises cell-type-specific gene therapy targets across the phenome.
neurogenomics/MungeSumstats
Rapid standardisation and quality control of GWAS or QTL summary statistics
neurogenomics/phenomix
Explore the phenome ✨🎆✨
neurogenomics/rare_disease_celltyping_apps
All apps and homepage code in one place for the rare disease EWCE project.
neurogenomics/RareDiseasePrioritisation
Prioritise cell-type-specific gene targets from the Rare Disease Celltyping project.
neurogenomics/ConsensusPeak
neurogenomics/peak_calling_tutorial
neurogenomics/read1_peak_calling
neurogenomics/APOE_microglia
neurogenomics/KGExplorer
Import and analyse large-scale biomedical knowledge graphs and ontologies. 🕸️⚙️💻⚙️🕸️
neurogenomics/MotifPeeker-reports
Public archive of reports generated using MotifPeeker R package
neurogenomics/PeakyFinders
R package for mining, calling, and importing epigenomic peaks.
neurogenomics/Power_Analysis_package
Repo to wrap "scRNA-seq_Power_Analysis" work into an R package
neurogenomics/Rare-Disease-Web-Portal
Website for the rare disease project
neurogenomics/scNLP
Tools for applying natural language processing (NLP) techniques to single-cell (sc) omics data.