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-cancer-variant-databases
A community-maintained repository of cancer clinical knowledge bases and databases focused on cancer variants.
seandavi/pubmed-llm-classifier
gpt-examples
seandavi/terraform_vertex_ai_project
Terraform for allowing gcp Vertex AI for a user
seandavi/bioconductor_docker
Docker Containers for Bioconductor - NEW!
seandavi/CuteCats
seandavi/microbiome_compendium_website
Website for the Human Microbiome Compendium
seandavi/nextflow
A DSL for data-driven computational pipelines
seandavi/curatedMetagenomicDataProcessing
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/B2AITeamingScratchpad
B2AITeamingScratchpad
seandavi/bioc-builder
seandavi/bioc_bib_chapter_2023
seandavi/CARDdealr
seandavi/COCancerScope
Colorado Cancer Catchment information portal
seandavi/CSHLData2023
Home page for CSHL Statistical Methods for Genome Scale Data, 2023 edition
seandavi/cu_profile_utils
seandavi/CURCDocumentation
Repository holding a wiki for Research Computing tutorials
seandavi/dagster-polars
Polars integration for Dagster
seandavi/dbt-coves
CLI tool for dbt users adopting analytics engineering best practices.
seandavi/flatiron_snowflake_loader
load flatiron zip file deliveries to slowflake data warehouse
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/kickstart.nvim
A launch point for your personal nvim configuration
seandavi/ncbi_mesh_parser
ncbi_mesh_parser
seandavi/omics-metadata-json-service
Web services for interrogating various omics-related resources and returning results as json responses.
seandavi/pubsub_example
seandavi/seandavi-blog
blog
seandavi/sqlmesh
SQLMesh is a data transformation framework that brings the benefits of DevOps to data teams. It enables data scientists, analysts, and engineers to efficiently run and deploy data transformations written in SQL or Python.
seandavi/vim-dadbod
dadbod.vim: Modern database interface for Vim