Stars
https://taxonomicallyinformedannotation.github.io/tima
Template to set up a modern Python project
Monorepo for the Earth Metabolome Initiative
Python client for searching, publishing and modifying nanopublications.
Java library for nanopublications based on RDF4J
Scalable and self-optimizing processing workflow for untargeted LC-MS
Template repository for setting a reproducible research project.
Large-scale tandem mass spectrum clustering using fast nearest neighbor searching.
EnzyMM - Enzyme Motif Miner - Geometric matching of catalytic motifs in protein structures.
A wrapper of rclone for each folder. Essentially minimize syncing workload for the person. After setting it up, syncing become just `./sync-with-rclone.sh push` or `pull`.
A reactive notebook for Python — run reproducible experiments, query with SQL, execute as a script, deploy as an app, and version with git. Stored as pure Python. All in a modern, AI-native editor.
This repository contains a copy of the Snakemake pipeline used for the creation of the four linear Lactuca pangenomes.
MMseqs2: ultra fast and sensitive search and clustering suite
CLOCI (Co-occurrence Locus and Orthologous Cluster Identifier) identifies gene clusters using multiple proxies of selection for coordinated gene evolution. In the process, CLOCI circumscribes loci …
Mycotools is a compilation of computational biology tools and database (MycotoolsDB/MTDB) software that facilitate large-scale comparative genomics.
Iterative Gene clUster Analysis, a high-throughput method for gene cluster family identification.
Natural Product Discovery tools -- a toolkit containing various pipelines for in silico analysis of natural product mass spectrometry data
A Pipeline for LC-MS/MS Metabolomics Data Process and Analysis
Foster the development of impactful AI models in drug discovery.
a *biosynformatic* fingerprint to explore natural product distance and diversity
This project is utilizing metabolomics and machine learning to classify natural product based on their known bioactive drug class.
Repository for the paper A generative artificial intelligence approach for antibiotic optimization