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25 followers · 10 following

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Achievement: Pull Sharkx3Achievement: Pair Extraordinairex3Achievement: YOLOAchievement: StarstruckAchievement: Arctic Code Vault Contributor

Achievements

Achievement: Pull Sharkx3Achievement: Pair Extraordinairex3Achievement: YOLOAchievement: StarstruckAchievement: Arctic Code Vault Contributor

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annacuomo/README.md

My work focuses on single-cell, genetic and genomic data analysis to understand environmental and genetic factors affecting molecular changes underlying complex traits and diseases. I also build or contribute to both python and R packages and workflows to standardize and advance single-cell human genetics.

GitHub statistics

Anna's Github stats

Package maintainer

Package Webpage Docs Docker Paper
CellRegMap CellRegMap webpage ReadTheDocs DockerHub Paper

Package contributor

Package Docs Webpage Preprint
SAIGE-QTL GitHub Docs Docs webpage Preprint

Workflow maintainer

Workflow Docker
CellregMap_pipeline DockerHub

Analysis repositories

Repository Year Data
TenK10K_phase_1_analyses 2025
SAIGE-QTL_pipeline_TenK10K_phase_1 2024
SAIGE-QTL_applications_publication 2024 Zenodo record 10811106
CellRegMap_applications_publication 2022
Single_cell_eQTL_guidelines_publication 2021 doi 10.5281/zenodo.4915837
Single_cell_neuronal_differentiation_publication 2021 doi 10.5281/zenodo.4651413
Single_cell_endoderm_differentiation_publication 2020 Zenodo record 3625024

Pinned Loading

  1. PhD_Thesis PhD_Thesis Public

    LateX scripts to compile my PhD thesis

    TeX 6 2

  2. Anna_PhD_notebooks Anna_PhD_notebooks Public

    Repository containing notebooks from various projects from my PhD

    Jupyter Notebook 1 1

  3. Anna_PostDoc_notebooks Anna_PostDoc_notebooks Public

    Repository containing cheatsheets and resources across different projects from my postdoc

    Jupyter Notebook 2

  4. limix/CellRegMap limix/CellRegMap Public

    CellRegMap: A statistical framework for mapping context-specific regulatory variants using scRNA-seq

    Python 26 3

  5. SAIGE_QTL_analyses SAIGE_QTL_analyses Public

    Repository containing the code to reproduce the analyses described in the SAIGE-QTL manuscript

    Jupyter Notebook 8

  6. populationgenomics/saige-tenk10k populationgenomics/saige-tenk10k Public

    Hail batch pipeline to run SAIGE on CPG's GCP

    Python 10 1