biocore / gemelliLinks
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.
☆84Updated last month
Alternatives and similar repositories for gemelli
Users that are interested in gemelli are comparing it to the libraries listed below
Sorting:
- Archive: Data, scripts, and outputs for the Nat. Comm. paper "Analysis of Composition of Microbiomes with Bias Correction". Please check …☆31Updated 5 years ago
- Network construction, analysis, and comparison for microbial compositional data☆172Updated 8 months ago
- An R package for microbial community analysis in an environmental context☆67Updated 5 years ago
- Semi-parametric Rank-Based Correlation and Partial Correlation Estimation for Quantitative Microbiome Data☆24Updated 3 years ago
- Amplicon sequencing pipelines suitable for SSU (16S, 18S), LSU (23S, 28S) and ITS.☆54Updated 6 months ago
- Differential abundance (DA) and correlation analyses for microbial absolute abundance data☆126Updated 3 months ago
- A microbiome analysis toolkit for R☆24Updated 2 years ago
- R package for microbiome data visualization and statistics. Uses phyloseq, vegan and the tidyverse. Docker image available.☆123Updated 4 months ago
- ☆20Updated 5 years ago
- Count Regression for Correlated Observations with the Beta-binomial☆106Updated last month
- SHallow shOtGUN profiler☆53Updated 3 years ago
- Statistical analysis for sparse high-throughput sequencing☆71Updated 11 months ago
- Functions for compositional analysis of high throughput sequencing☆29Updated 2 years ago
- diversity estimation under ecological networks☆83Updated 4 months ago
- Compare different differential abundance and expression methods☆52Updated 3 years ago
- microbial association network clustering algorithm☆14Updated 2 years ago
- Parse NCBI taxonomy and accessions to find taxonomic assignments☆77Updated 4 months ago
- The Microbiome Explorer provides methods to analyze and visualize microbial community sequencing data either from the R command line or t…☆72Updated 3 years ago
- Robust Aitchison PCA from sparse count data☆37Updated 3 years ago
- Archive: R functions for Analysis of Composition of Microbiomes (ANCOM). Please check our ANCOMBC R package for the most up-to-date ANCOM…☆61Updated 3 years ago
- Visualize differentially ranked features (taxa, metabolites, ...) and their log-ratios across samples☆34Updated 8 months ago
- Scripts for reproducing results shown in Gupta VK et al. "A Predictive Index for Health Status using Species-level Gut Microbiome Profili…☆36Updated 5 years ago
- A Reference Pathways Mapper for turning metagenomic functional profiles into pathway/module profiles.☆27Updated 7 years ago
- ☆38Updated last year
- Creating plasmid maps inside ggplot.☆88Updated 3 months ago
- Tools for visualising microbial community amplicon data☆70Updated last month
- Speedy versions of phyloseq functions☆48Updated last year
- ☆43Updated 8 years ago
- ALDEx_bioc is the working directory for updating bioconductor☆29Updated 7 months ago
- Basic Sequence Taxonomy Annotator☆44Updated last year