ThieleLab / CodeBaseLinks
Code depository for papers
☆26Updated 3 weeks ago
Alternatives and similar repositories for CodeBase
Users that are interested in CodeBase are comparing it to the libraries listed below
Sorting:
- ☆41Updated 5 months ago
- From annotated genomes to metabolic screening in large scale microbiotas☆66Updated 6 months ago
- A Reference Pathways Mapper for turning metagenomic functional profiles into pathway/module profiles.☆27Updated 6 years ago
- ☆27Updated last year
- ☆10Updated 6 years ago
- Inference of microbial interaction networks from large-scale heterogeneous abundance data☆89Updated last month
- ☆37Updated last year
- Microbial community-scale metabolic modeling predicts personalized short-chain-fatty-acid production profiles in the human gut☆10Updated last year
- PaperBLAST: find papers about a protein or its homologs☆47Updated 2 months ago
- Workflow to rapidly quantify taxa from all domains of life, directly from short-read human gut metagenomes☆65Updated last month
- ☆34Updated last year
- A package to annotate protein sequences☆60Updated 8 months ago
- ☆76Updated last year
- ☆12Updated last year
- A metagenomic strategy for harnessing the chemical repertoire of the human microbiome☆33Updated 2 weeks ago
- Visualize differentially ranked features (taxa, metabolites, ...) and their log-ratios across samples☆34Updated 7 months ago
- Chimera: An easy to use pipeline for Genome based Metabolic Network reconstruction, evaluation and visualization.☆18Updated 3 years ago
- A highly scalable, user-interactive tool for the large scale analysis of Biosynthetic Gene Clusters data☆88Updated 3 months ago
- Python package to study microbial communities using metabolic modeling.☆111Updated this week
- Bacterial Annotation by Learned Representation of Genes☆58Updated 4 years ago
- gutSMASH☆56Updated last month
- Predict oxygen, temperature, salinity, and pH preferences of bacteria and archaea from a genome☆58Updated 7 months ago
- Metagenome analysis using the Kraken software suite☆35Updated 3 years ago
- MGM (Microbial General Model) as a large-scaled pretrained language model for interpretable microbiome data analysis.☆36Updated 7 months ago
- Woltka: a versatile meta'omic data classifier☆75Updated 2 months ago
- MARVEL: Metagenomic Analyses and Retrieval of Viral ELements☆52Updated last year
- Automated synthetic microbial Community Design☆13Updated 4 years ago
- PHANOTATE: a gene caller for phages.☆78Updated 11 months ago
- Efficient phylogenetic clustering of viral sequences☆89Updated 3 weeks ago
- CLI tool to annotate genes with KOfam☆85Updated 2 years ago