scMagic2

Vector DB of software tools for scRNA-seq analysis. Demo

How to use

Use make_vectordb.py to create and query a vector database of scRNA-esq tools
Run steamlit run test_vectordb.py to use vector db as coding recomendatin engine for your scRNA-seq analysis Jupyter Notebook

Get database of scRNA-seq tools and enrich it with tools documentation
Create vector database of scRNA-seq tools
Create a simple query engine for vector database
Create a simple web app to use vector database as coding recomendation engine
Make web app use vector DB directly
Make live connection with source data
Optimise vector DB for scEvals by utisiling citation count, usage context from citations, full documentstion, other metadata, etc.
Experiment with custom distance metrics, embedding methods and other search/ranking algorithms.

Name		Name	Last commit message	Last commit date
Latest commit History 13 Commits
dataframes		dataframes
helper scripts		helper scripts
old versions		old versions
scRNA-seq cases		scRNA-seq cases
.DS_Store		.DS_Store
.gitignore		.gitignore
LICENSE		LICENSE
README.md		README.md
make_chromadb.ipynb		make_chromadb.ipynb
make_vectordb.py		make_vectordb.py
prompts.py		prompts.py
requirements.txt		requirements.txt
sc_tools_retrieval_v1.ipynb		sc_tools_retrieval_v1.ipynb
test_vectordb.py		test_vectordb.py
tools_embeddig.py		tools_embeddig.py