kylebittinger / qiimer
Quantitative Insights Into Microbial Ecology - parsing and plotting functions for R
☆18Updated 7 years ago
Alternatives and similar repositories for qiimer:
Users that are interested in qiimer are comparing it to the libraries listed below
- The is mostly a wrapper tool using phyloseq and microbiome R packages.☆34Updated 2 years ago
- Visualize microbiome data with black magic ggtree☆68Updated 4 years ago
- Workshop materials for shotgun metagenomics☆36Updated 7 years ago
- Schloss Lab Tools for Reproducible Microbiome Research 💩☆30Updated last year
- ☆23Updated 6 years ago
- An R package for microbial community analysis in an environmental context☆66Updated 4 years ago
- Tools for visualising microbial community amplicon data☆67Updated 8 months ago
- Statistical analysis for sparse high-throughput sequencing☆69Updated last month
- A set of R scripts for the analysis of microbial profiles☆42Updated 8 months ago
- tutorials for 2015 EDAMAME☆24Updated 7 years ago
- A robust and fast clustering method for amplicon-based studies☆31Updated last year
- R scripts for performing co-occurrence analyses☆34Updated 10 years ago
- Barcode demultiplex for Illumina I1, R1, R2 fastq.gz files☆31Updated 7 years ago
- Simple and crude scripts that I've written for my own work that may be of help to others with similar tasks☆14Updated 4 years ago
- Various customs functions written to enhance the base functions of phyloseq. Most of them are used in the formation "Métagénomique 16S" p…☆33Updated last year
- An R package for analysis of microbiome relative abundance data using zero inflated beta GAMLSS and meta-analysis across microbiome studi…☆33Updated 4 years ago
- functions to analyse sanger sequencing reads in R☆100Updated 10 months ago
- Speedy versions of phyloseq functions☆46Updated 9 months ago
- 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
- power estimation for microbiome studies analyzed with pairwise distances and PERMANOVA☆35Updated 9 years ago
- AMPtk: Amplicon ToolKit for NGS data (formally UFITS)☆38Updated last year
- Automated pipeline for analyses of fungal ITS from the Illumina☆31Updated 5 months ago
- Reproducible Analyses accompanying DADA2 + PacBio Manuscript☆31Updated 4 years ago
- Compare different differential abundance and expression methods☆51Updated 2 years ago
- A comprehensive and customizable R package for microbiome analysis.☆21Updated 2 years ago
- SHallow shOtGUN profiler☆54Updated 2 years ago
- Microbiome Analysis Using R Workshop originally organized for the 2018 ASM General Meeting in Atlanta, GA, but regularly updated since.☆27Updated 2 years ago
- Miscellaneous functions for metagenomic analysis.☆49Updated this week
- R scripts and tutorial datasets to detect conditionally rare taxa in time series of microbial communities☆20Updated 4 years ago
- Phylogenetic Investigation of Communities by Reconstruction of Unobserved STates (PICRUST): Official repository for software and unit tes…☆90Updated 2 years ago