A python framework for microbial natural products data mining by integrating genomics and metabolomics data
☆22Jan 28, 2026Updated last month
Alternatives and similar repositories for nplinker
Users that are interested in nplinker are comparing it to the libraries listed below
Sorting:
- ☆14Jul 4, 2023Updated 2 years ago
- scripts for predicting natural product activity from biosynthetic gene cluster sequences☆24Sep 15, 2025Updated 5 months ago
- ☆20Jul 12, 2023Updated 2 years ago
- BGC Detection and Classification Using Deep Learning☆156Nov 11, 2023Updated 2 years ago
- Scripts used in the publication Tyler P. Barnum, Israel A. Figueroa, Charlotte I. Carlström, Lauren N. Lucas, Anna L. Engelbrektson, and …☆10Jun 19, 2019Updated 6 years ago
- the Metagenomic test for Presence Or Absence of Pathways☆13Mar 4, 2019Updated 6 years ago
- SMBGC Annotation using Neural Networks Trained on Interpro Signatures☆30Apr 10, 2025Updated 10 months ago
- Reaction Analysis through Imaging of Chemical Units☆16Dec 5, 2025Updated 2 months ago
- ☆13Aug 30, 2023Updated 2 years ago
- Gupta et al., TaxiBGC: a Taxonomy-guided Approach for Profiling Experimentally Characterized Microbial Biosynthetic Gene Clusters and Sec…☆15May 24, 2023Updated 2 years ago
- Dashboard for analysis of liquid chromatography (tandem) mass spectrometry data.☆33Jan 29, 2026Updated last month
- ☆33Oct 27, 2020Updated 5 years ago
- Natural Product Discovery tools -- a toolkit containing various pipelines for in silico analysis of natural product mass spectrometry da…☆29Aug 19, 2022Updated 3 years ago
- Python pipeline for metabolomics data preprocessing, QC, standardization and annotation☆16Dec 5, 2025Updated 2 months ago
- Explore potential Biosynthetic Gene Clusters in plant genomes. This tool is originally sourced from antiSMASH 4.0.☆35Oct 29, 2025Updated 4 months ago
- A database of In-Silico predicted MS/MS spectrum of Natural Products☆15Sep 24, 2022Updated 3 years ago
- A python client for the ClassyFire API☆17May 7, 2020Updated 5 years ago
- Leveraging Heterogeneous Network Embedding for Metabolic Pathway Prediction☆17Jul 8, 2021Updated 4 years ago
- Web scraper to retrieve protein data catalogued by the CAZy, UniProt, NCBI, GTDB and PDB websites/databases.☆17Jan 7, 2026Updated last month
- ☆21Jul 8, 2025Updated 7 months ago
- ☆17Nov 19, 2025Updated 3 months ago
- lsaBGC - Lineage Specific Analysis of Biosynthetic Gene Clusters☆41Sep 28, 2025Updated 5 months ago
- Snakemake workflow for the analysis of biosynthetic gene clusters across large collections of genomes (pangenomes)☆52Dec 22, 2024Updated last year
- a *biosynformatic* fingerprint to explore natural product distance and diversity☆21Aug 30, 2025Updated 6 months ago
- A fast and accurate binning refinement tool to constructs high quality MAGs from the output of multiple binning tools.☆44Feb 5, 2026Updated 3 weeks ago
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆15Jun 26, 2018Updated 7 years ago
- eMetabolomics project: Mass Annotation based on in silico Generated Metabolites☆16Oct 30, 2022Updated 3 years ago
- ☆16Jul 20, 2022Updated 3 years ago
- SIRIUS is a software for discovering a landscape of de-novo identification of metabolites using tandem mass spectrometry. This repository…☆138Nov 7, 2025Updated 3 months ago
- Similarity networks of biosynthetic gene clusters☆153Feb 3, 2026Updated 3 weeks ago
- TransAnnot - a fast transcriptome annotation pipeline☆20Jan 22, 2025Updated last year
- Official code repository for the paper READRetro: Natural Product Biosynthesis Planning with Retrieval-Augmented Dual-View Retrosynthesis☆22Jun 8, 2024Updated last year
- A machine learning-based tool for predicting metabolic modules in incomplete bacterial genomes.☆23Aug 14, 2025Updated 6 months ago
- Integrate your chemometric tools with the scikit-learn API 🧪 🤖☆69Feb 21, 2026Updated last week
- NRPSpredictor2 is a program to predict the specificity of bacterial and fungal adenylation domains.☆11Oct 7, 2019Updated 6 years ago
- A highly scalable, user-interactive tool for the large scale analysis of Biosynthetic Gene Clusters data☆96Aug 11, 2025Updated 6 months ago
- MS2Query - machine learning assisted library querying of MS/MS spectra☆55Nov 6, 2025Updated 3 months ago
- R package for MetFrag☆24Sep 25, 2017Updated 8 years ago
- Analysis and benchmarking of mass spectra similarity measures using gnps data set.☆24Aug 13, 2021Updated 4 years ago