neurogenomics's repositories
MungeSumstats
Rapid standardisation and quality control of GWAS or QTL summary statistics
rworkflows
Continuous integration for R packages. π Automates testing β , documentation website building π¦, & containerised deployment π³.
MAGMA_Celltyping
Find causal cell-types underlying complex trait genetics
orthogene
𧬠o r t h o g e n e π§¬β¨β¨β¨β¨β¨β¨β¨ Interspecies gene mappingβ¨β¨β¨β¨β¨ π¦ π π± π π³ π π π π π πͺ± π πͺ° π π π π¦ π π π π¦ π π π π π π π π π π π π π π π π π 𦧠π π¦ π πββοΈ
reanalysis_Mathys_2019
A re-analysis of the [Single-cell transcriptomic analysis of Alzheimerβs disease](https://www.nature.com/articles/s41586-019-1195-2) using a standardised data processing and pseudobulk differential expression approach
EpiCompare
Comparison, benchmarking & QC of epigenetic datasets
rare_disease_celltyping
Code, data and results associated with the "Rare diseases cell-typing" project.
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.
HPOExplorer
Functions for working with the Human Phenotype Ontology data
chromexpress
Which epigenetic factors are the best predictors of gene expression? An analysis using ENCODE data
MotifStats
Package for integrating peak and motif positions
MSTExplorer
Multi-Scale Target Explorer systematically identifies, prioritises, and visualises cell-type-specific gene therapy targets across the phenome.
rare_disease_celltyping_apps
All apps and homepage code in one place for the rare disease EWCE project.
RareDiseasePrioritisation
Prioritise cell-type-specific gene targets from the Rare Disease Celltyping project.
.github
Neurogenomics Lab Profile
ArchR
ArchR : Analysis of Regulatory Chromatin in R (www.ArchRProject.com)
bioc_mentorship_docs
Training materials for mentors and mentees
GenomicRanges
Representation and manipulation of genomic intervals
KGExplorer
Import and analyse large-scale biomedical knowledge graphs and ontologies. πΈοΈβοΈπ»βοΈπΈοΈ
project_management
Tools, tutorials, and resources for research-based project management. π β β β
Rsamtools
Binary alignment (BAM), FASTA, variant call (BCF), and tabix file import