justaddcoffee

berkeleybop.github.io

Homepages for the Berkeley BOP.

go-cam-models-kg-covid-19

GO-CAM models to be ingested into kg-covid-19

justaddcoffee-chembl_antiviral_smile_and_embeddings

area1_target_info

Protein Target Information for Area 1

curate-gpt

LLM-driven curation assist tool (pre-alpha)

dans_kg_idg

Exp using DANS on KG-IDG

embed_monarch

Make embeddings of the Monarch Knowledge Graph

embiggen

Python library for the node2vec family of algorithms

ensmallen_experiments

Experiments on the EnsmallenGraph library.

ensmallen_graph

Rust library to run weighted random walks on very big graphs.

ga_pyphetools_cohorts

gcloud_storage_read_write

geneontology.github.io

Repository for storing GO documentation, directly available through the general GO site

kg-covid-19

An instance of KG Hub to produce a knowledge graph for COVID-19 response.

kg-covid-19-embeddings

make embeddings for kg-covid-19 knowledge graph using embiggen

kg-hub-viz

Some hacking on visualization of KG-Hub summary stats

kg_covid_19_drug_analyses

kg_covid_19_high_mem_issue

load_go_in_ensmallen_graph

madam_curie

Utility to convert CURIEs to URLs

make_latex_table1

oakx-grape

Experimental OAK plugin for Grape

ontogpt

GPT-based ontological extraction tools, including SPIRES

phenopacket-tools

Java CLI and library for creating, converting and validating GA4GH Phenopackets

phenotype2phenopacket

plot_phenogpt_plots

rustsim

A fork of rustsim to investigate adding phenomizer and possibly genetic algorithm-type things

semsimian-server

Rust web server for Semsimian - a semantic similarity implementation

tensorflow_rocm_docker

The files I use to run tensorflow inside of a docker on a machine with AMD gpus

venomx

Vector Embedding Named Object Model indeX