Repositories list

• crumblr

  Public
  Count ratio uncertainty modeling base linear regression

  R

  •1•3•0•0•Updated Feb 18, 2025Feb 18, 2025

• PsychADxD

  Public
  PsychAD Cross-Disorder Capstone - Single-cell atlas of transcriptomic vulnerability across multiple neuropsychiatric and neurodegenerative diseases

  Python

  •0•1•0•0•Updated Feb 5, 2025Feb 5, 2025

• diseaseneurogenomics.github.io

  Public
  Website

  0•0•0•0•Updated Jan 31, 2025Jan 31, 2025

• antagonist

  Public
  Gene target prioritization and computational drug repurposing

  R

  •

  Artistic License 2.0

  •1•1•0•0•Updated Jan 14, 2025Jan 14, 2025

• variancePartition

  Public
  Quantify and interpret divers of variation in multilevel gene expression experiments

  R

  •15•7•2•0•Updated Jan 7, 2025Jan 7, 2025

• snMultiome

  Public
  Analysis scripts for snMultiome project

  R

  •0•5•0•0•Updated Dec 12, 2024Dec 12, 2024

• dreamlet

  Public
  Perform differential expression analysis on cohort-scale single cell datasets using linear mixed models

  HTML

  •4•12•1•0•Updated Nov 20, 2024Nov 20, 2024

• scMyeloidAD

  Public
  Plasticity of Human Microglia and Brain Perivascular Macrophages in Aging and Alzheimer’s Disease

  Python

  •

  MIT License

  •1•3•0•0•Updated Nov 19, 2024Nov 19, 2024

• PsychAD

  Public
  HTML

  •0•0•0•0•Updated Nov 8, 2024Nov 8, 2024

• nps_ad

  Public
  R code for analysis of PsychAD projects

  R

  •0•0•0•0•Updated Oct 21, 2024Oct 21, 2024

• molecular_profiling

  Public
  Code for Molecular Profiling manuscript

  R

  •

  MIT License

  •0•0•0•0•Updated Sep 26, 2024Sep 26, 2024

• PsychAD_snTWAS

  Public
  Repository for data associated with the psychAD snTWAS paper. Synapse information located at https://www.synapse.org/Synapse:syn63181047/files/

  1•0•0•0•Updated Sep 16, 2024Sep 16, 2024

• psychAD_SciData

  Public
  Plot figures from the psychAD paper

  Jupyter Notebook

  •

  MIT License

  •1•0•0•0•Updated Jun 12, 2024Jun 12, 2024

• AMP-PD_SciData

  Public
  AMP-PD Scientifc Data Figures

  R

  •

  MIT License

  •1•1•0•0•Updated May 30, 2024May 30, 2024

• vae

  Public
  scVI-based VAE to encode cells into lower dimensional latent space, and to predict cell properties

  Jupyter Notebook

  •

  MIT License

  •0•0•0•0•Updated Apr 28, 2024Apr 28, 2024

• PheMED

  Public
  Phenotypic Measurement of Effective Dilution in GWAS and TWAS.

  Jupyter Notebook

  •3•1•0•0•Updated Mar 25, 2024Mar 25, 2024

• zenith

  Public
  Gene set analysis following differential expression using linear (mixed) modeling with dream

  R

  •2•0•0•0•Updated Mar 8, 2024Mar 8, 2024

• remaCor

  Public
  remaCor: Random effects meta-analysis for correlated test statistics

  R

  •2•1•0•0•Updated Mar 4, 2024Mar 4, 2024

• MyeloidAD

  Public
  Code repository for analysis of RNA-seq data from myeloid cells from AD

  Apache License 2.0

  •0•0•0•0•Updated Jan 2, 2024Jan 2, 2024

• perceiver

  Public
  Network model to predict gene expression and cell properties from masked-out scRNA data

  Python

  •

  MIT License

  •0•0•0•0•Updated Aug 13, 2023Aug 13, 2023

• living_brain

  Public
  Comparison between living and post-mortem mRNA expression data

  Jupyter Notebook

  •

  MIT License

  •0•0•0•0•Updated Aug 11, 2023Aug 11, 2023

• TRABAJO

  Public
  Jupyter Notebook

  •0•1•0•0•Updated Jun 27, 2023Jun 27, 2023

• decorate

  Public
  Differential Epigenetic Correlation Test

  R

  •1•1•0•0•Updated May 17, 2023May 17, 2023

• psychad_metadata

  Public
  R

  •0•1•0•0•Updated Jan 24, 2023Jan 24, 2023

• .github

  Public
  Public facing description

  0•0•0•0•Updated Jan 11, 2023Jan 11, 2023

• MMQTL

  Public
  MMQTL is a statistical package applying meta-analysis to detect multiple QTL signals integrating signals among conditions, with control for population structure and relatedness

  C++

  •4•0•0•0•Updated Feb 7, 2022Feb 7, 2022