Alternatives and similar repositories for Microbiome-Analysis-Using-R

Users that are interested in Microbiome-Analysis-Using-R are comparing it to the libraries listed below

• Russel88 / DAtest
  Compare different differential abundance and expression methods
  ☆52Updated 3 years ago
• zoecastillo / microbiomeExplorer
  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
• waldronlab / lefser
  R implementation of the LEfSe method
  ☆59Updated 4 months ago
• nhanhocu / metamicrobiomeR
  An R package for analysis of microbiome relative abundance data using zero inflated beta GAMLSS and meta-analysis across microbiome studi…
  ☆34Updated 4 years ago
• Lagkouvardos / Rhea
  A set of R scripts for the analysis of microbial profiles
  ☆41Updated last year
• knights-lab / BugBase
  ☆41Updated 7 years ago
• YuLab-SMU / MicrobiomeProfiler
  A shiny package for microbiome functional enrichment analysis
  ☆36Updated 5 months ago
• ChiLiubio / file2meco
  Transform files to the microtable object with microeco package
  ☆28Updated last month
• knightlab-analyses / reference-frames
  ☆20Updated 5 years ago
• benjjneb / LRASManuscript
  Reproducible Analyses accompanying DADA2 + PacBio Manuscript
  ☆32Updated 4 years ago
• hildebra / lotus2
  Amplicon sequencing pipelines suitable for SSU (16S, 18S), LSU (23S, 28S) and ITS.
  ☆53Updated 3 months ago
• xielab2017 / EasyMicroPlot
  R package for downstream Microbiome analysis
  ☆30Updated 9 months ago
• lch14forever / microbiomeViz
  Visualize microbiome data with black magic ggtree
  ☆68Updated 5 years ago
• microsud / dysbiosisR
  The dysbiosisR package implements tools for calculating some common microbiome dysbiosis measures
  ☆15Updated 2 years ago
• mikemc / speedyseq
  Speedy versions of phyloseq functions
  ☆47Updated last year
• mestaki / qiime2-to-BugBase
  ☆12Updated 3 years ago
• FrederickHuangLin / ANCOM-Code-Archive
  Archive: R functions for Analysis of Composition of Microbiomes (ANCOM). Please check our ANCOMBC R package for the most up-to-date ANCOM…
  ☆63Updated 3 years ago
• brendankelly / micropower
  power estimation for microbiome studies analyzed with pairwise distances and PERMANOVA
  ☆39Updated 9 years ago
• HCBravoLab / metagenomeSeq
  Statistical analysis for sparse high-throughput sequencing
  ☆69Updated 9 months ago
• bulksoil / BioProtocol
  Repo for a Microbiome Protocol
  ☆10Updated 7 years ago
• aomlomics / tourmaline
  Amplicon sequence processing workflow using QIIME 2 and Snakemake
  ☆46Updated this week
• drostlab / orthologr
  Genome wide orthology inference and dNdS estimation
  ☆96Updated last week
• wejlab / animalcules
  R shiny app for interactive microbiome analysis
  ☆55Updated 3 months ago
• david-barnett / microViz
  R package for microbiome data visualization and statistics. Uses phyloseq, vegan and the tidyverse. Docker image available.
  ☆119Updated last month
• SchlossLab / schtools
  Schloss Lab Tools for Reproducible Microbiome Research 💩
  ☆31Updated 2 years ago
• malucalle / selbal
  selbal: selection of balances for microbial signatures
  ☆32Updated 6 months ago
• microsud / microbiomeutilities
  The is mostly a wrapper tool using phyloseq and microbiome R packages.
  ☆33Updated 2 years ago
• FrederickHuangLin / ANCOMBC
  Differential abundance (DA) and correlation analyses for microbial absolute abundance data
  ☆124Updated last week
• danknights / sourcetracker
  ☆77Updated last year
• jbisanz / MicrobeR
  Handy tools for Microbiome analysis in R
  ☆18Updated 6 years ago