david4096

Open Source Bioinformatics - Scientific Computing for Medical Research

UC Santa Cruz Genomics Institute

Pinned Repositories

celldb
celldb - Database for functional genomics
Language:Jupyter Notebook0 0 170
dockstore
Our VM/Docker sharing infrastructure and management component
Language:Java0 1 00
flask-auth0-example
Provides a boilerplate for securing your API using Auth0
Language:Python6 1 13
ga4gh-node-gateway
An implementation of the GA4GH interface in node.js
Language:JavaScript2 0 00
homepage
My Homepage, not hosted on github pages 🤑
Language:HTML0 0 10
rdf-embedder
Language:Python2 3 20
schema-uml
Visualize (.avdl and .proto format) schema files as a UML diagram using Graphviz
Language:Python2 0 00
umap-jsonl
Simple CLI to make plots of JSON Lines files
Language:Python0 1 50
vss-dat-import
Clinvar data import for the Variant Subscription Service
Language:JavaScript2 0 00

david4096's Repositories

david4096/croissant-rdf
Tools for working with RDF from Croissant JSON-LD resources
Language:Jupyter Notebook35
david4096/rdf-embedder
Language:Python2 3 20
david4096/huggingface-rdf
Tools for generating RDF from Croissant JSON-LD resources
Language:Jupyter Notebook1 1 0
david4096/metabiohackathon24
Language:Jupyter Notebook1
david4096/PracticalSessions2024
Language:Jupyter Notebook1 0 01
david4096/umap-jsonl
Simple CLI to make plots of JSON Lines files
Language:Python0 1 50
david4096/23andMe-brca-exchange
Get expert, curated information about your 23andMe results in the BRCA1 and 2 regions
Language:Python
david4096/BH24-SemClinTrial
Language:Python0 0
david4096/BioHackathonFiles2024
Files for the BioHackathon (CWL, etc)
Language:Nextflow
david4096/biorxiv-finetuner
Language:Jupyter Notebook
david4096/camber-demos
Language:Jupyter Notebook0 0
david4096/cwl-workflow-library
Language:Python1 0
david4096/dataset-viewer
Backend that powers the dataset viewer on Hugging Face dataset pages through a public API.
david4096/dbcls_llm
Language:Jupyter Notebook1 01
david4096/dockstore-notebooks
Language:Jupyter Notebook
david4096/flask-stripe
A flask stripe API shim
Language:Python1 10
david4096/galaxy-test
Language:Jupyter Notebook
david4096/herro
HERRO is a highly-accurate, haplotype-aware, deep-learning tool for error correction of Nanopore R10.4.1 or R9.4.1 reads (read length of >= 10 kbps is recommended).
Language:Rust0 0
david4096/huggingface-rdf-paper
BioHackrXiv for BH Fukushima 2024 huggingface-rdf
Language:TeX
david4096/huggingface-rdf-space
david4096/ipywidgets
Interactive Widgets for the Jupyter Notebook
david4096/ismb2024_2
My ISMB 2024 GitHub Repo
Language:Nextflow0 0
david4096/notebook-test
Language:Jupyter Notebook1 0
david4096/pycaret-use-case
Use cases for PyCaret
david4096/qlever
Very fast SPARQL Engine, which can handle very large knowledge graphs like the complete Wikidata, offers context-sensitive autocompletion for SPARQL queries, and allows combination with text search. It's faster than engines like Blazegraph or Virtuoso, especially for queries involving large result sets.
Language:C++0 0
david4096/snakemake
This is the development home of the workflow management system Snakemake. For general information, see
Language:HTML0 0
david4096/tgvannotate
Language:Jupyter Notebook1 4
david4096/vrs-annotator
Annotates VCF Variants with VRS IDs
Language:Jupyter Notebook
david4096/wdl-bootcamp-jun24
Language:WDL1 0
david4096/wildbio