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@DiseaseNeuroGenomics

Center for Disease Neurogenomics @ Mount Sinai

Open source software, documentation and applications for analysis of functional genomics datasets
README.md

Welcome to the open source software repositories developed by the Center for Disease Neurogenomics (CDN) at the Icahn School of Medicine at Mount Sinai located in New York City. We develop statistical methods and software to ask biological questions from the large-scale functional genomics datasets generated by the group and the broader genomics field.

The members of the CDN are commited to developing software that is:

  • Open source
  • Well documented
  • Scalable to large functional genomics datasets
  • Statistically rigorous
  • Reproducible

We emphasize integration with standard practices from R, CRAN and Bioconductor.

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  1. variancePartition variancePartition Public

    Forked from GabrielHoffman/variancePartition

    Quantify and interpret divers of variation in multilevel gene expression experiments

    R 7 1

  2. decorate decorate Public

    Forked from GabrielHoffman/decorate

    Differential Epigenetic Correlation Test

    R 1

  3. MMQTL MMQTL Public

    Forked from jxzb1988/MMQTL

    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. remaCor remaCor Public

    Forked from GabrielHoffman/remaCor

    remaCor: Random effects meta-analysis for correlated test statistics

    R 1

Repositories

Showing 10 of 26 repositories
  • crumblr Public Forked from GabrielHoffman/crumblr

    Count ratio uncertainty modeling base linear regression

    DiseaseNeuroGenomics/crumblr’s past year of commit activity
    R 2 1 0 0 Updated Feb 18, 2025
  • PsychADxD Public

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

    DiseaseNeuroGenomics/PsychADxD’s past year of commit activity
    Python 1 0 0 0 Updated Feb 5, 2025
  • diseaseneurogenomics.github.io Public

    Website

    DiseaseNeuroGenomics/diseaseneurogenomics.github.io’s past year of commit activity
    0 0 0 0 Updated Jan 31, 2025
  • antagonist Public Forked from voloudakislab/antagonist

    Gene target prioritization and computational drug repurposing

    DiseaseNeuroGenomics/antagonist’s past year of commit activity
    R 1 Artistic-2.0 1 0 0 Updated Jan 14, 2025
  • variancePartition Public Forked from GabrielHoffman/variancePartition

    Quantify and interpret divers of variation in multilevel gene expression experiments

    DiseaseNeuroGenomics/variancePartition’s past year of commit activity
    R 7 15 2 0 Updated Jan 7, 2025
  • snMultiome Public

    Analysis scripts for snMultiome project

    DiseaseNeuroGenomics/snMultiome’s past year of commit activity
    R 5 0 0 0 Updated Dec 12, 2024
  • dreamlet Public Forked from GabrielHoffman/dreamlet

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

    DiseaseNeuroGenomics/dreamlet’s past year of commit activity
    HTML 12 4 1 0 Updated Nov 20, 2024
  • scMyeloidAD Public Forked from hoondy/scMyeloidAD

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

    DiseaseNeuroGenomics/scMyeloidAD’s past year of commit activity
    Python 3 MIT 1 0 0 Updated Nov 19, 2024
  • PsychAD Public
    DiseaseNeuroGenomics/PsychAD’s past year of commit activity
    HTML 0 0 0 0 Updated Nov 8, 2024
  • nps_ad Public

    R code for analysis of PsychAD projects

    DiseaseNeuroGenomics/nps_ad’s past year of commit activity
    R 0 0 0 0 Updated Oct 21, 2024
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