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
  ☆51Updated 2 years ago
• benjjneb / LRASManuscript
  Reproducible Analyses accompanying DADA2 + PacBio Manuscript
  ☆31Updated 4 years ago
• Lagkouvardos / Rhea
  A set of R scripts for the analysis of microbial profiles
  ☆42Updated 8 months ago
• mikemc / speedyseq
  Speedy versions of phyloseq functions
  ☆46Updated 9 months ago
• zoecastillo / microbiomeExplorer
  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
• ChiLiubio / file2meco
  Transform files to the microtable object with microeco package
  ☆24Updated 2 months ago
• vallenderlab / MicrobiomeR
  A comprehensive and customizable R package for microbiome analysis.
  ☆21Updated 2 years ago
• hildebra / lotus2
  Amplicon sequencing pipelines suitable for SSU (16S, 18S), LSU (23S, 28S) and ITS.
  ☆54Updated last month
• microUCPH / amplicon_data_analysis
  Collection of notebooks describing the basic analysis workflow for a 16S rRNA gene amplicon sequencing project
  ☆11Updated 2 years ago
• bulksoil / BioProtocol
  Repo for a Microbiome Protocol
  ☆9Updated 6 years ago
• waldronlab / lefser
  R implementation of the LEfSe method
  ☆54Updated 3 weeks ago
• thomazbastiaanssen / Tjazi
  A microbiome analysis toolkit for R
  ☆21Updated last year
• microsud / microbiomeutilities
  The is mostly a wrapper tool using phyloseq and microbiome R packages.
  ☆34Updated 2 years ago
• knightlab-analyses / reference-frames
  ☆20Updated 4 years ago
• microsud / dysbiosisR
  The dysbiosisR package implements tools for calculating some common microbiome dysbiosis measures
  ☆14Updated 2 years ago
• gmteunisse / fantaxtic
  Fantaxtic - Nested Bar Plots for Phyloseq Data
  ☆28Updated 7 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…
  ☆33Updated 4 years ago
• Nick243 / Introduction-to-Metagenomics-Summer-Workshop-2019
  Data, scripts, and lectures for the Introduction to Metagenomics Summer Workshop 2019.
  ☆32Updated 5 years ago
• nextgenusfs / amptk
  AMPtk: Amplicon ToolKit for NGS data (formally UFITS)
  ☆38Updated last year
• mestaki / qiime2-to-BugBase
  ☆12Updated 3 years ago
• SchlossLab / schtools
  Schloss Lab Tools for Reproducible Microbiome Research 💩
  ☆30Updated last year
• KasperSkytte / ampvis2
  Tools for visualising microbial community amplicon data
  ☆67Updated 8 months ago
• knights-lab / BugBase
  ☆39Updated 7 years ago
• schuyler-smith / phylosmith
  functions for analyzing phyloseq data
  ☆26Updated last week
• GenomicsAotearoa / metagenomics_summer_school
  Course materials for the Genomics Aotearoa Metagenomics Summer School, to be hosted at the University of Auckland in Septermber
  ☆53Updated 5 months ago
• mahendra-mariadassou / phyloseq-extended
  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
• mblstamps / stamps2019
  Materials for the STAMPS 2019 course at the MBL in Woods Hole, MA, USA
  ☆35Updated 5 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…
  ☆60Updated 2 years ago
• biobakery / melonnpan
  Model-based Genomically Informed High-dimensional Predictor of Microbial Community Metabolic Profiles
  ☆35Updated 10 months ago
• ggloor / CoDaSeq
  Functions for compositional analysis of high throughput sequencing
  ☆29Updated last year