seandavi
- Pediatric oncologist - Cancer researcher - Data scientist - Community organizer
University of Colorado Anschutz School of MedicineEllicott City, MD, USA
Pinned Repositories
GenomicDataCommons
Provide R access to the NCI Genomic Data Commons portal.
awesome-cancer-variant-databases
A community-maintained repository of cancer clinical knowledge bases and databases focused on cancer variants.
awesome-single-cell
Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.
ci4cc-informatics-resources
Community-maintained list of resources that the CI4CC organization and the larger cancer informatics community have found useful or are developing.
GEOquery
The bridge between the NCBI Gene Expression Omnibus and Bioconductor
GFFutils
Convert, explore, and manipulate GFF and GTF files (used in bioinformatics) using a sqlite-based approach
sars2pack
An R package with over 50 highly cited, read-to-use, up-to-date COVID-19 pandemic data resources
SDIntroToR
Introduction to R
SRAdbV2
R Interface to the NCBI SRA metadata
wdlRunR
Elastic, reproducible, and reusable genomic data science tools from R backed by cloud resources
seandavi's Repositories
seandavi/awesome-single-cell
Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.
seandavi/awesome-cancer-variant-databases
A community-maintained repository of cancer clinical knowledge bases and databases focused on cancer variants.
seandavi/GEOquery
The bridge between the NCBI Gene Expression Omnibus and Bioconductor
seandavi/BiocPkgTools
Computable build reports, package metadata, and download stats from the Bioconductor project
seandavi/curatedMetagenomicsNextflow
Curated Metagenomics Data Nextflow workflows
seandavi/campus-llm-kb
campus-llm-kb
seandavi/MicroBioMap
seandavi/microbiome_compendium_website
Website for the Human Microbiome Compendium
seandavi/state-cancer-profile-scraper
State cancer profiles scraper
seandavi/2023-11-27-CUNY-json-data
Brief overview of JSON data and web tech for course at CUNY
seandavi/2023-12-11-sql-intro-cuny
Brief introduction to SQL using quarto, duckdb, and R
seandavi/awesome-static-generators
A curated list of static web site generators.
seandavi/bioc_bib_chapter_2023
seandavi/BiocBibliometrics
Bibliometrics for Bioconductor package publications
seandavi/BiocBuildDB
Longitudinal Bioc build database
seandavi/blog-code
seandavi/CARDdealr
seandavi/clinvar4bioc
Tooling for working with clinvar in Bioconductor
seandavi/cu_profile_utils
seandavi/dagster-polars
Polars integration for Dagster
seandavi/ghactions-gcp-example
Example repo for authenticating to GCP from ghactions
seandavi/huggingface_notebooks
Notebooks using the Hugging Face libraries 🤗
seandavi/jaffle-shop-dbt
An open source sandbox project exploring dbt workflows via a fictional sandwich shop's data.
seandavi/jupyter_notebooks
seandavi/nextflow_telemetry
Python web api for nextflow web callbacks
seandavi/notebooks
Notebooks for fun
seandavi/omicidx-gh-etl
seandavi/refinebioc
The bridge between refine.bio and Bioconductor
seandavi/seandavi-blog
blog
seandavi/vertexai-api-project
'Small project to set up an existing project for using VertexAI using terraform and then testing via python'