microbial association network clustering algorithm
☆14Dec 14, 2023Updated 2 years ago
Alternatives and similar repositories for manta
Users that are interested in manta are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Tutorials☆15Apr 2, 2022Updated 4 years ago
- Scripts to build high-quality genome-scale metabolic model by using a deep neural network to guide gapfilling☆19May 26, 2026Updated 4 months ago
- Supplementary data for co-occurrence manuscript☆10Dec 19, 2019Updated 6 years ago
- ☆15Dec 8, 2022Updated 3 years ago
- Fast implementation of KofamScan optimized for high-memory systems using PyHMMER☆23Aug 17, 2026Updated last month
- AI Agents on DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- Alignment-free Phylogenetic Placement using filtered SPAced word Matches☆13Jul 19, 2023Updated 3 years ago
- ☆13Apr 5, 2021Updated 5 years ago
- Predicting Absolute and Relative Abundance by Modeling Efficiency to Derive Intervals and Concentrations☆15Nov 24, 2025Updated 10 months ago
- An R package for learning log-ratio biomarkers from high-throughput sequencing data.☆23Mar 31, 2023Updated 3 years ago
- ALDEx_bioc is the working directory for updating bioconductor☆31Mar 27, 2026Updated 6 months ago
- Course website for Genomic Data Visualization 2024☆27Mar 15, 2024Updated 2 years ago
- Rarefaction scripts☆18Jan 30, 2026Updated 8 months ago
- micca - MICrobial Community Analysis☆19Feb 12, 2020Updated 6 years ago
- METAgenomic LONgitudinal Differential Abundance method☆15Dec 17, 2019Updated 6 years ago
- End-to-end encrypted email - Proton Mail • AdSpecial offer: 40% Off Yearly / 80% Off First Month. All Proton services are open source and independently audited for security.
- Miscellaneous functions for metagenomic analysis.☆53May 14, 2026Updated 4 months ago
- Fit LOg-RAtio Lasso regression for compositional covariates☆16Sep 29, 2026Updated last week
- A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing☆71Aug 10, 2021Updated 5 years ago
- Minimal Microbial Consortia creation tools☆13Jan 28, 2022Updated 4 years ago
- The is mostly a wrapper tool using phyloseq and microbiome R packages.☆31Nov 23, 2022Updated 3 years ago
- ☆21Dec 15, 2020Updated 5 years ago
- SMETANA: a tool to analyse interactions in microbial communities☆76May 6, 2025Updated last year
- Speedy versions of phyloseq functions☆50Apr 21, 2024Updated 2 years ago
- Annotation of Metabolite Origin via Networks: A tool for predicting putative metabolite origins for microbes or between microbes and host…☆26Aug 20, 2026Updated last month
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- A mini course on biological data analysis☆10Jan 16, 2025Updated last year
- Improving genome bins through the combination of different binning programs☆31Jan 30, 2023Updated 3 years ago
- Compare different differential abundance and expression methods☆54Mar 8, 2022Updated 4 years ago
- PaperBLAST: find papers about a protein or its homologs☆54Sep 8, 2026Updated last month
- R package for microbiome analysis. Provides helper functions for common workflows ranging from preprocessing to visualization.☆24Jan 24, 2024Updated 2 years ago
- Quantifying the significance of genetic variation using probabilistic profile-based methods.☆19Apr 21, 2021Updated 5 years ago
- Data Science and Machine Learning☆18Mar 29, 2024Updated 2 years ago
- Pipeline for metagenomic community analysis using DNA isolated from virus-like particles☆13Mar 21, 2020Updated 6 years ago
- An awesome list of resources for reproducible research in R. Includes a table of comparison for different tools.☆17Dec 21, 2024Updated last year
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- An R package for removing contamination from metabarcoding (e.g., microbiome) datasets post-sequencing☆21Oct 17, 2023Updated 2 years ago
- Semi-parametric Rank-Based Correlation and Partial Correlation Estimation for Quantitative Microbiome Data☆23May 16, 2026Updated 4 months ago
- R package for searching, downloading and analysis of EBI MGnify metagenomics data☆23Feb 13, 2026Updated 7 months ago
- GPRuler, an open-source computational framework to automate the reconstruction process of Gene-Protein-Reaction (GPR) rules within metabo…☆13Oct 11, 2022Updated 3 years ago
- From annotated genomes to metabolic screening in large scale microbiotas☆76Jul 27, 2026Updated 2 months ago
- An R package for microbial community analysis in an environmental context☆67Sep 23, 2020Updated 6 years ago
- Code Safety Inspection Service☆20Sep 23, 2022Updated 4 years ago