microsud / microbiomeutilitiesLinks
The is mostly a wrapper tool using phyloseq and microbiome R packages.
β33Updated 2 years ago
Alternatives and similar repositories for microbiomeutilities
Users that are interested in microbiomeutilities are comparing it to the libraries listed below
Sorting:
- Schloss Lab Tools for Reproducible Microbiome Research π©β31Updated 2 years ago
- A set of R scripts for the analysis of microbial profilesβ41Updated last year
- A comprehensive and customizable R package for microbiome analysis.β23Updated 3 months ago
- An R package for analysis of microbiome relative abundance data using zero inflated beta GAMLSS and meta-analysis across microbiome studiβ¦β34Updated 5 years ago
- Handy tools for Microbiome analysis in Rβ18Updated 6 years ago
- AMPtk: Amplicon ToolKit for NGS data (formally UFITS)β39Updated 2 years ago
- Tools for visualising microbial community amplicon dataβ69Updated 2 weeks ago
- The Microbiome Explorer provides methods to analyze and visualize microbial community sequencing data either from the R command line or tβ¦β72Updated 3 years ago
- Compare different differential abundance and expression methodsβ52Updated 3 years ago
- R shiny app for interactive microbiome analysisβ56Updated 5 months ago
- 16S taxonomy assignment using an ecosystem-specific database.β17Updated 2 years ago
- functions for analyzing phyloseq dataβ28Updated 9 months ago
- Amplicon sequencing pipelines suitable for SSU (16S, 18S), LSU (23S, 28S) and ITS.β53Updated 5 months ago
- power estimation for microbiome studies analyzed with pairwise distances and PERMANOVAβ39Updated 9 years ago
- Reproducible Analyses accompanying DADA2 + PacBio Manuscriptβ33Updated 5 years ago
- Speedy versions of phyloseq functionsβ48Updated last year
- A microbiome analysis toolkit for Rβ24Updated 2 years ago
- diversity estimation under ecological networksβ83Updated 3 months ago
- Annotation of Metabolite Origin via Networks: A tool for predicting putative metabolite origins for microbes or between microbes and hostβ¦β23Updated last year
- A shiny package for microbiome functional enrichment analysisβ36Updated 2 weeks ago
- The dysbiosisR package implements tools for calculating some common microbiome dysbiosis measuresβ15Updated 2 years ago
- Functions for compositional analysis of high throughput sequencingβ29Updated last year
- R package for microbiome analysis. Provides helper functions for common workflows ranging from preprocessing to visualization.β23Updated last year
- Parse NCBI taxonomy and accessions to find taxonomic assignmentsβ77Updated 3 months ago
- Visualize microbiome data with black magic ggtreeβ68Updated 5 years ago
- Ying's tools for analysis, with particular focus on microbiome dataβ41Updated 3 weeks ago
- Microbiome Analysis Using R Workshop originally organized for the 2018 ASM General Meeting in Atlanta, GA, but regularly updated since.β27Updated 3 years ago
- An R package for microbial community analysis in an environmental contextβ67Updated 5 years ago
- Model-based Genomically Informed High-dimensional Predictor of Microbial Community Metabolic Profilesβ41Updated last year
- β41Updated 7 years ago