lobolab / mergemLinks
mergem is a python package and command-line tool for merging, comparing, and translating genome-scale metabolic models
☆13Updated last month
Alternatives and similar repositories for mergem
Users that are interested in mergem are comparing it to the libraries listed below
Sorting:
- Teaching materials for SymbNET course: from MAGs to GEMs☆14Updated last year
- This repository contains all source code in the reconstructor python package, installation instructions, important file dependencies, and…☆23Updated 3 months ago
- Chimera: An easy to use pipeline for Genome based Metabolic Network reconstruction, evaluation and visualization.☆18Updated 2 years ago
- From annotated genomes to metabolic screening in large scale microbiotas☆64Updated 4 months ago
- Python package for building and analyzing models using ModelSEED☆23Updated 5 months ago
- SMETANA: a tool to analyse interactions in microbial communities☆64Updated 5 months ago
- Python package to study microbial communities using metabolic modeling.☆110Updated last month
- A highly scalable, user-interactive tool for the large scale analysis of Biosynthetic Gene Clusters data☆85Updated last month
- Higher-Order Co-occurrence☆12Updated 3 years ago
- ☆41Updated 3 months ago
- CarveMe: genome-scale metabolic model reconstruction☆184Updated 3 weeks ago
- A Python package for obtaining complete lineages and the lowest common ancestor (LCA) from a set of taxonomic identifiers☆50Updated 8 months ago
- Supplementary data for co-occurrence manuscript☆10Updated 5 years ago
- Predict oxygen, temperature, salinity, and pH preferences of bacteria and archaea from a genome☆56Updated 6 months ago
- ReFramed: metabolic modeling package☆61Updated 3 weeks ago
- ☆15Updated 3 years ago
- Similarity networks of biosynthetic gene clusters☆129Updated last month
- A QIIME 2 plugin for interaction with the Greengenes2 database☆32Updated last year
- Find clustered hits from a BLAST search☆121Updated 10 months ago
- Pipelines used in the lab.☆14Updated 6 months ago
- EMBL GEMs: A collection of GEnome-scale Models for bacterial species☆29Updated 6 years ago
- Phage Annotation using Protein Structures☆129Updated 3 weeks ago
- MacSyFinder - Detection of macromolecular systems in protein datasets using systems modelling and similarity search.☆64Updated last month
- This repository contains the definitive copy of the biochemistry and metadata used to construct models using the ModelSEED/ProbAnno appro…☆63Updated 8 months ago
- MGnify genome analysis pipeline☆106Updated 2 months ago
- Pathway-based and phylogenetically adjusted quantification of competition and cooperation between microbial species☆15Updated 4 years ago
- Convert GTDB taxonomy to NCBI taxdump format☆73Updated 2 years ago
- Viral protein family functional prediction using protein language models☆20Updated last year
- the toolbox for Microbial and personalized GEM, REactiobiome and community NEtwork modelling☆11Updated last year
- Woltka: a versatile meta'omic data classifier☆75Updated last month