ShadeLab / ConditionallyRareTaxa
R scripts and tutorial datasets to detect conditionally rare taxa in time series of microbial communities
☆20Updated 4 years ago
Alternatives and similar repositories for ConditionallyRareTaxa
Users that are interested in ConditionallyRareTaxa are comparing it to the libraries listed below
Sorting:
- functions for analyzing phyloseq data☆27Updated 3 months ago
- QIIME 2 plugin wrapping DADA2☆20Updated last week
- AMPtk: Amplicon ToolKit for NGS data (formally UFITS)☆38Updated last year
- Speedy versions of phyloseq functions☆48Updated last year
- The is mostly a wrapper tool using phyloseq and microbiome R packages.☆34Updated 2 years ago
- diversity estimation under ecological networks☆83Updated last month
- A set of R scripts for the analysis of microbial profiles☆41Updated 11 months ago
- power estimation for microbiome studies analyzed with pairwise distances and PERMANOVA☆36Updated 9 years ago
- ☆55Updated this week
- The Microbiome Explorer provides methods to analyze and visualize microbial community sequencing data either from the R command line or t…☆71Updated 2 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 2 months ago
- Barcode demultiplex for Illumina I1, R1, R2 fastq.gz files☆31Updated 7 years ago
- An R package for microbial community analysis in an environmental context☆67Updated 4 years ago
- Schloss Lab Tools for Reproducible Microbiome Research 💩☆31Updated last year
- R scripts for performing co-occurrence analyses☆34Updated 10 years ago
- A robust and fast clustering method for amplicon-based studies☆31Updated 2 years ago
- Reproducible Analyses accompanying DADA2 + PacBio Manuscript☆33Updated 4 years ago
- Sparse Cooccurence Network Investigation for Compositional data☆24Updated 6 months ago
- Tools for visualising microbial community amplicon data☆67Updated 3 weeks ago
- Set of useful functions and scripts for analyzing amplicon Miseq data.☆17Updated 8 years ago
- Compare different differential abundance and expression methods☆51Updated 3 years ago
- A comprehensive and customizable R package for microbiome analysis.☆23Updated 2 years ago
- Fantaxtic - Nested Bar Plots for Phyloseq Data☆30Updated 10 months ago
- Functions for compositional analysis of high throughput sequencing☆29Updated last year
- [deprecated] Please use ampvis2☆8Updated 7 years ago
- Protocol for finding informative protein families and then using them to score metagenomic sets.☆9Updated 3 years ago
- Materials for the STAMPS 2019 course at the MBL in Woods Hole, MA, USA☆35Updated 5 years ago
- SHallow shOtGUN profiler☆54Updated 3 years ago
- Workshop for NGS'18 conference, Barcelona 2018☆24Updated 6 years ago
- 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