DenefLab / MicrobeMiseqLinks
Set of useful functions and scripts for analyzing amplicon Miseq data.
☆18Updated 9 years ago
Alternatives and similar repositories for MicrobeMiseq
Users that are interested in MicrobeMiseq are comparing it to the libraries listed below
Sorting:
- Reproducible Analyses accompanying DADA2 + PacBio Manuscript☆34Updated 5 years ago
- functions for analyzing phyloseq data☆28Updated last year
- 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
- The is mostly a wrapper tool using phyloseq and microbiome R packages.☆32Updated 3 years ago
- AMPtk: Amplicon ToolKit for NGS data (formally UFITS)☆39Updated 2 years ago
- Compare different differential abundance and expression methods☆52Updated 3 years ago
- Amplicon sequencing pipelines suitable for SSU (16S, 18S), LSU (23S, 28S) and ITS.☆55Updated 7 months ago
- A set of R scripts for the analysis of microbial profiles☆41Updated 3 weeks ago
- SHallow shOtGUN profiler☆53Updated 3 years ago
- Parse NCBI taxonomy and accessions to find taxonomic assignments☆78Updated 6 months ago
- r package for post-clustering curation of amplicon next generation sequencing data (metabarcoding)☆72Updated 2 years ago
- ☆78Updated 2 years ago
- 16S taxonomy assignment using an ecosystem-specific database.☆17Updated 2 years ago
- Visualize microbiome data with black magic ggtree☆68Updated 5 years ago
- Please use mmgenome2 instead. Tools for extracting individual genomes from metagenomes☆27Updated 8 years ago
- A robust and fast clustering method for amplicon-based studies☆31Updated 2 years ago
- Convert QIIME files into Oligotyping subsets.☆15Updated 11 years ago
- Tools for visualising microbial community amplicon data☆71Updated 3 months ago
- An R package for microbial community analysis in an environmental context☆67Updated 5 years ago
- ☆42Updated 8 years ago
- Statistical analysis for sparse high-throughput sequencing☆71Updated last year
- R shiny app for interactive microbiome analysis☆56Updated 8 months ago
- SourceTracker2☆85Updated last year
- Microbiome Analysis Using R Workshop originally organized for the 2018 ASM General Meeting in Atlanta, GA, but regularly updated since.☆27Updated 3 years ago
- RDP extensible sequence classifier for fungal lsu, bacterial and archaeal 16s☆59Updated 3 years ago
- Miscellaneous functions for metagenomic analysis.☆53Updated last month
- Course materials for the Genomics Aotearoa Metagenomics Summer School, to be hosted at the University of Auckland in Septermber☆67Updated last year
- Basic Sequence Taxonomy Annotator☆44Updated last year
- GraftM - Rapid community profiles from metagenomes☆48Updated 3 months ago
- Speedy versions of phyloseq functions☆48Updated last year