Alternatives and similar repositories for qiime2R

Users that are interested in qiime2R are comparing it to the libraries listed below

• yiluheihei / microbiomeMarker
  R package for microbiome biomarker discovery
  ☆186Updated 4 months ago
• stefpeschel / NetCoMi
  Network construction, analysis, and comparison for microbial compositional data
  ☆169Updated 3 months ago
• YuLab-SMU / MicrobiotaProcess
  A comprehensive R package for deep mining microbiome
  ☆190Updated 2 weeks ago
• cafferychen777 / ggpicrust2
  Make Picrust2 Output Analysis and Visualization Easier
  ☆143Updated last week
• david-barnett / microViz
  R package for microbiome data visualization and statistics. Uses phyloseq, vegan and the tidyverse. Docker image available.
  ☆115Updated 3 months ago
• microsud / Tools-Microbiome-Analysis
  A list of R environment based tools for microbiome data exploration, statistical analysis and visualization
  ☆115Updated 2 years ago
• FrederickHuangLin / ANCOMBC
  Differential abundance (DA) and correlation analyses for microbial absolute abundance data
  ☆122Updated last month
• benjjneb / decontam
  Simple statistical identification and removal of contaminants in marker-gene and metagenomics sequencing data
  ☆160Updated 2 years ago
• microbiome / OMA
  Orchestrating Microbiome Analysis
  ☆99Updated last week
• UMNFuN / FUNGuild
  FUNGuild: parsing OTUs into functional guilds
  ☆119Updated last year
• xia-lab / MicrobiomeAnalystR
  A companion R package for the MicrobiomeAnalyst web server
  ☆126Updated 3 weeks ago
• taowenmicro / ggClusterNet
  Microbial ecological network visualization clustering
  ☆121Updated 4 months ago
• biobakery / Maaslin2
  MaAsLin2: Microbiome Multivariate Association with Linear Models
  ☆144Updated 8 months ago
• ChiLiubio / microeco
  An R package for data analysis in microbial community ecology
  ☆236Updated 2 weeks ago
• zdk123 / SpiecEasi
  Sparse InversE Covariance estimation for Ecological Association and Statistical Inference
  ☆211Updated last month
• picrust / picrust
  Phylogenetic Investigation of Communities by Reconstruction of Unobserved STates (PICRUST): Official repository for software and unit tes…
  ☆91Updated 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…
  ☆71Updated 2 years ago
• microbiota / amplicon
  Statistics and visualization for amplicon data
  ☆70Updated 2 years ago
• lch14forever / microbiomeViz
  Visualize microbiome data with black magic ggtree
  ☆68Updated 4 years ago
• cozygene / FEAST
  Fast expectation maximization for microbial source tracking
  ☆126Updated last year
• yhwu / idemp
  Barcode demultiplex for Illumina I1, R1, R2 fastq.gz files
  ☆31Updated 8 years ago
• grimmlab / MicrobiomeBestPracticeReview
  Current Challenges and Best Practice Protocols for Microbiome Analysis using Amplicon and Metagenomic Sequencing
  ☆119Updated last year
• umerijaz / microbiomeSeq
  An R package for microbial community analysis in an environmental context
  ☆67Updated 4 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
• 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 4 months ago
• roblanf / sangeranalyseR
  functions to analyse sanger sequencing reads in R
  ☆101Updated 4 months ago
• SegataLab / lefse
  ☆86Updated last year
• waldronlab / curatedMetagenomicData
  Curated Metagenomic Data of the Human Microbiome
  ☆138Updated last month
• gmteunisse / fantaxtic
  Fantaxtic - Nested Bar Plots for Phyloseq Data
  ☆31Updated last year
• sherrillmix / taxonomizr
  Parse NCBI taxonomy and accessions to find taxonomic assignments
  ☆77Updated 4 months ago