Gemelli is a tool box for running Robust Aitchison PCA (RPCA), Joint Robust Aitchison PCA (Joint-RPCA), TEMPoral TEnsor Decomposition (TEMPTED), and Compositional Tensor Factorization (CTF) on sparse compositional omics datasets.
☆88Jul 13, 2026Updated last month
Alternatives and similar repositories for gemelli
Users that are interested in gemelli are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Robust Aitchison PCA from sparse count data☆37Aug 17, 2022Updated 3 years ago
- Case-control matching for microbiome data☆10Aug 8, 2023Updated 3 years ago
- Bayesian Inferential Regression for Differential Microbiome Analysis☆26Jun 5, 2026Updated 2 months ago
- Differential abundance (DA) and correlation analyses for microbial absolute abundance data☆143Apr 27, 2026Updated 3 months ago
- Archive: Data, scripts, and outputs for the Nat. Comm. paper "Analysis of Composition of Microbiomes with Bias Correction". Please check …☆36Oct 19, 2020Updated 5 years ago
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- Count Regression for Correlated Observations with the Beta-binomial☆108Nov 13, 2025Updated 9 months ago
- EnDED is a program that aims to detect environmentally-driven ("indirect") edges in an association network.☆10Dec 1, 2023Updated 2 years ago
- Vanilla regression methods for microbiome differential abundance analysis☆62Nov 3, 2020Updated 5 years ago
- accessory functions for processing microbial community data☆12Dec 24, 2022Updated 3 years ago
- Sparse InversE Covariance estimation for Ecological Association and Statistical Inference☆233Updated this week
- Visualize differentially ranked features (taxa, metabolites, ...) and their log-ratios across samples☆35Apr 4, 2025Updated last year
- Archive: R functions for Analysis of Composition of Microbiomes (ANCOM). Please check our ANCOMBC R package for the most up-to-date ANCOM…☆61Jun 11, 2022Updated 4 years ago
- ☆18Nov 19, 2024Updated last year
- Sparse Cooccurence Network Investigation for Compositional data☆26Updated this week
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- Scripts for reproducing results shown in Gupta VK et al. "A Predictive Index for Health Status using Species-level Gut Microbiome Profili…☆37Sep 23, 2020Updated 5 years ago
- MIMIX: a Bayesian Mixed-Effects Model for Microbiome Data from Designed Experiments☆11Jul 9, 2020Updated 6 years ago
- ☆17May 22, 2023Updated 3 years ago
- R package for microbiome data visualization and statistics. Uses phyloseq, vegan and the tidyverse. Docker image available.☆129Jul 28, 2026Updated 2 weeks ago
- FA2021 Bootcamp course website for the incoming cohort of the Bioinformatics & Systems Biology Ph.D. program☆20Sep 16, 2021Updated 4 years ago
- qiime2 plugin for aldex2 for differential abundance analysis☆11Mar 5, 2020Updated 6 years ago
- Amplicon sequencing pipelines suitable for SSU (16S, 18S), LSU (23S, 28S) and ITS.☆54Jun 14, 2025Updated last year
- COmpositional Zero-Inflated Network Estimation☆11Nov 20, 2023Updated 2 years ago
- Woltka: a versatile meta'omic data classifier☆81Sep 8, 2025Updated 11 months ago
- 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.
- ☆16Apr 10, 2023Updated 3 years ago
- Protologgger is a tool for the description of novel taxa by providing taxonomic, functional and ecological insights☆18Nov 24, 2025Updated 8 months ago
- Distance denoise by Entropy☆16Oct 17, 2025Updated 9 months ago
- This repo contains the R microshades package, which contains a color blind accessible color palette with 30 unique colors and functions f…☆74Jun 6, 2024Updated 2 years ago
- ALDEx tool to examine compositional high-throughput sequence data with Welch's t-test☆15Mar 7, 2019Updated 7 years ago
- Functions for compositional analysis of high throughput sequencing☆29Dec 8, 2023Updated 2 years ago
- The seqtime R package provides functions to analyse sequencing data time series and to simulate community dynamics☆20Dec 9, 2022Updated 3 years ago
- Network construction, analysis, and comparison for microbial compositional data☆181Jul 7, 2026Updated last month
- CAMISIM: Simulating metagenomes and microbial communities☆230Jul 16, 2026Updated 3 weeks ago
- 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.
- motus - a tool for marker gene-based OTU (mOTU) profiling☆180Jul 17, 2026Updated 3 weeks ago
- A model-based visualization method for microbiome data☆16Jul 17, 2026Updated 3 weeks ago
- strain-level analysis tools☆41Oct 21, 2024Updated last year
- Neural networks for microbe-metabolite interaction analysis☆133Nov 4, 2022Updated 3 years ago
- Code and manual of the endoR R-package (Ruaud et al, in preparation).☆11Oct 12, 2023Updated 2 years ago
- Fit LOg-RAtio Lasso regression for compositional covariates☆16Updated this week
- ShortBRED is a pipeline to take a set of protein sequences, reduce them to a set of unique identifying strings ("markers"), and then sear…☆31Jan 24, 2025Updated last year