vmaffei / dada2_to_picrustLinks
Experimental pipeline to perform de novo PICRUSt on de-noised amplicon sequence variants (ASV)
☆19Updated 7 years ago
Alternatives and similar repositories for dada2_to_picrust
Users that are interested in dada2_to_picrust are comparing it to the libraries listed below
Sorting:
- Speedy versions of phyloseq functions☆48Updated last year
- Compare different differential abundance and expression methods☆52Updated 3 years ago
- A set of R scripts for the analysis of microbial profiles☆41Updated last week
- functions for analyzing phyloseq data☆28Updated 11 months ago
- 16S taxonomy assignment using an ecosystem-specific database.☆17Updated 2 years ago
- The is mostly a wrapper tool using phyloseq and microbiome R packages.☆33Updated 3 years ago
- accessory functions for processing microbial community data☆12Updated 3 years 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
- ☆13Updated 5 years ago
- diversity estimation under ecological networks☆83Updated 5 months ago
- An R package for analysis of microbiome relative abundance data using zero inflated beta GAMLSS and meta-analysis across microbiome studi…☆34Updated 5 years ago
- Parse NCBI taxonomy and accessions to find taxonomic assignments☆78Updated 5 months ago
- power estimation for microbiome studies analyzed with pairwise distances and PERMANOVA☆39Updated 10 years ago
- Tools for visualising microbial community amplicon data☆70Updated 2 months ago
- ☆42Updated 8 years ago
- AMPtk: Amplicon ToolKit for NGS data (formally UFITS)☆39Updated 2 years ago
- Reproducible Analyses accompanying DADA2 + PacBio Manuscript☆34Updated 5 years ago
- Functions for compositional analysis of high throughput sequencing☆29Updated 2 years ago
- Miscellaneous functions for metagenomic analysis.☆52Updated 3 weeks ago
- Repository for R package MetQy (read related publication here: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6247936/)☆18Updated 3 years ago
- An R package for microbial community analysis in an environmental context☆67Updated 5 years ago
- Visualize microbiome data with black magic ggtree☆68Updated 5 years ago
- A comprehensive and customizable R package for microbiome analysis.☆23Updated 5 months ago
- Microbiome Analysis Using R Workshop originally organized for the 2018 ASM General Meeting in Atlanta, GA, but regularly updated since.☆27Updated 3 years ago
- Automated pipeline for analyses of fungal ITS from the Illumina☆32Updated 8 months ago
- Schloss Lab Tools for Reproducible Microbiome Research 💩☆31Updated 2 years ago
- Genome wide orthology inference and dNdS estimation☆96Updated 4 months ago
- Amplicon sequencing pipelines suitable for SSU (16S, 18S), LSU (23S, 28S) and ITS.☆55Updated 7 months ago
- A microbiome analysis toolkit for R☆25Updated 2 years ago
- Working with the outputs of sourmash in R☆28Updated 2 years ago