jchen1981 / GMPR
Calculate the normalizing factors for zeroinflated sequencing data such as microbiome sequencing data
β16Updated 2 months ago
Alternatives and similar repositories for GMPR:
Users that are interested in GMPR are comparing it to the libraries listed below
- Schloss Lab Tools for Reproducible Microbiome Research π©β31Updated last year
- ALDEx_bioc is the working directory for updating bioconductorβ28Updated 2 months ago
- Speedy versions of phyloseq functionsβ48Updated last year
- Model-based Genomically Informed High-dimensional Predictor of Microbial Community Metabolic Profilesβ35Updated last year
- Plot microbiome time series in parallelβ26Updated last year
- Phylogenetic Organization of Metagenomic Signals (POMS)β19Updated 2 years ago
- A comprehensive and customizable R package for microbiome analysis.β23Updated 2 years ago
- Functions for compositional analysis of high throughput sequencingβ29Updated last year
- 16S taxonomy assignment using an ecosystem-specific database.β16Updated 2 years ago
- The is mostly a wrapper tool using phyloseq and microbiome R packages.β34Updated 2 years ago
- Tools for extracting individual genomes from metagenomesβ17Updated last year
- An R package for analysis of microbiome relative abundance data using zero inflated beta GAMLSS and meta-analysis across microbiome studiβ¦β33Updated 4 years ago
- Data, scripts, and lectures for the Introduction to Metagenomics Summer Workshop 2019.β33Updated 5 years ago
- Experimental pipeline to perform de novo PICRUSt on de-noised amplicon sequence variants (ASV)β19Updated 6 years ago
- π¦BEEM-Static: An R package for inferring microbial interactions based on Lotka-Volterra modelsβ9Updated 3 years ago
- Amplicon sequencing pipelines suitable for SSU (16S, 18S), LSU (23S, 28S) and ITS.β53Updated 3 months ago
- Repository for R package MetQy (read related publication here: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6247936/)β18Updated 3 years ago
- A microbiome analysis toolkit for Rβ22Updated last year
- functions for analyzing phyloseq dataβ27Updated 2 months ago
- Compare different differential abundance and expression methodsβ51Updated 3 years ago
- β29Updated 3 months ago
- Course materials for the Genomics Aotearoa Metagenomics Summer School, to be hosted at the University of Auckland in Septermberβ57Updated 7 months ago
- Working with the outputs of sourmash in Rβ27Updated last year
- β20Updated 4 years ago
- AMPtk: Amplicon ToolKit for NGS data (formally UFITS)β38Updated last year
- A set of R scripts for the analysis of microbial profilesβ41Updated 11 months ago
- R package for microbial pangenomicsβ23Updated 3 years ago
- β13Updated 5 years ago
- β22Updated 2 years ago
- Sparse Cooccurence Network Investigation for Compositional dataβ24Updated 5 months ago