vmaffei / dada2_to_picrustLinks
Experimental pipeline to perform de novo PICRUSt on de-noised amplicon sequence variants (ASV)
☆19Updated 6 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:
- functions for analyzing phyloseq data☆27Updated 4 months ago
- The is mostly a wrapper tool using phyloseq and microbiome R packages.☆34Updated 2 years ago
- AMPtk: Amplicon ToolKit for NGS data (formally UFITS)☆38Updated last year
- Schloss Lab Tools for Reproducible Microbiome Research 💩☆31Updated last year
- Tools for visualising microbial community amplicon data☆67Updated last month
- Compare different differential abundance and expression methods☆51Updated 3 years ago
- Speedy versions of phyloseq functions☆48Updated last year
- A comprehensive and customizable R package for microbiome analysis.☆23Updated last week
- ☆23Updated 6 years ago
- A microbiome analysis toolkit for R☆22Updated last year
- Automated pipeline for analyses of fungal ITS from the Illumina☆31Updated last month
- A set of R scripts for the analysis of microbial profiles☆41Updated last year
- Reproducible Analyses accompanying DADA2 + PacBio Manuscript☆33Updated 4 years ago
- 16S taxonomy assignment using an ecosystem-specific database.☆16Updated 2 years ago
- SHallow shOtGUN profiler☆54Updated 3 years ago
- Amplicon sequencing pipelines suitable for SSU (16S, 18S), LSU (23S, 28S) and ITS.☆53Updated 4 months ago
- Working with the outputs of sourmash in R☆27Updated last year
- Metagenomics-related extended functionalities to samtools☆21Updated last year
- Parse NCBI taxonomy and accessions to find taxonomic assignments☆74Updated 2 months ago
- Course materials for the Genomics Aotearoa Metagenomics Summer School, to be hosted at the University of Auckland in Septermber☆59Updated 9 months ago
- accessory functions for processing microbial community data☆12Updated 2 years ago
- A robust and fast clustering method for amplicon-based studies☆31Updated 2 years ago
- Snakemake pipeline for downstream analysis of metagenome-assembled genomes (MAGs) (pronounced mag-pie)☆62Updated 2 years ago
- Functions for compositional analysis of high throughput sequencing☆29Updated last year
- Rarefaction scripts☆17Updated last year
- ☆13Updated 5 years ago
- Sparse Cooccurence Network Investigation for Compositional data☆24Updated 7 months ago
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆49Updated 2 years ago
- Analysis of Composition of Microbiomes☆11Updated 8 years ago
- MetaMLST is a computational tool for in-silico Multi-Locus Sequence Typing from metagenomic data.☆16Updated 2 years ago