DenefLab / MicrobeMiseq
Set of useful functions and scripts for analyzing amplicon Miseq data.
☆17Updated 8 years ago
Alternatives and similar repositories for MicrobeMiseq:
Users that are interested in MicrobeMiseq are comparing it to the libraries listed below
- Convert QIIME files into Oligotyping subsets.☆15Updated 10 years ago
- The is mostly a wrapper tool using phyloseq and microbiome R packages.☆34Updated 2 years ago
- functions for analyzing phyloseq data☆26Updated last week
- Reproducible Analyses accompanying DADA2 + PacBio Manuscript☆31Updated 4 years ago
- Please use mmgenome2 instead. Tools for extracting individual genomes from metagenomes☆27Updated 7 years ago
- Course materials for the Genomics Aotearoa Metagenomics Summer School, to be hosted at the University of Auckland in Septermber☆53Updated 4 months ago
- AMPtk: Amplicon ToolKit for NGS data (formally UFITS)☆38Updated last year
- The Microbiome Explorer provides methods to analyze and visualize microbial community sequencing data either from the R command line or t…☆70Updated 2 years ago
- Experimental pipeline to perform de novo PICRUSt on de-noised amplicon sequence variants (ASV)☆19Updated 6 years ago
- Amplicon sequencing pipelines suitable for SSU (16S, 18S), LSU (23S, 28S) and ITS.☆53Updated last week
- A set of R scripts for the analysis of microbial profiles☆41Updated 7 months ago
- Statistical analysis for sparse high-throughput sequencing☆69Updated last month
- Schloss Lab Tools for Reproducible Microbiome Research 💩☆30Updated last year
- ☆23Updated 6 years ago
- FROGS is a galaxy/CLI workflow designed to produce an OTUs count matrix from high depth sequencing amplicon data.☆25Updated 3 weeks ago
- Compare different differential abundance and expression methods☆50Updated 2 years ago
- Speedy versions of phyloseq functions☆46Updated 8 months ago
- Parse NCBI taxonomy and accessions to find taxonomic assignments☆70Updated 3 weeks ago
- Automated pipeline for analyses of fungal ITS from the Illumina☆31Updated 5 months ago
- A microbiome analysis toolkit for R☆21Updated last year
- SHallow shOtGUN profiler☆54Updated 2 years ago
- Data, scripts, and lectures for the Introduction to Metagenomics Summer Workshop 2019.☆32Updated 5 years ago
- Model-based Genomically Informed High-dimensional Predictor of Microbial Community Metabolic Profiles☆35Updated 9 months ago
- MicrobeCensus estimates the average genome size of microbial communities from metagenomic data☆43Updated 4 years ago
- Interactive tools for metagenome visualization and binning in R☆28Updated 6 years ago
- Snakemake pipeline for downstream analysis of metagenome-assembled genomes (MAGs) (pronounced mag-pie)☆62Updated last year
- GraftM - Rapid community profiles from metagenomes☆44Updated 6 months ago
- Improvement of metagenome-assembled genomes☆50Updated 4 years ago
- Tools for visualising microbial community amplicon data☆68Updated 7 months ago