Alternatives and similar repositories for r-sparcc

Users that are interested in r-sparcc are comparing it to the libraries listed below

• jbisanz / MicrobeR
  Handy tools for Microbiome analysis in R
  ☆18Updated 6 years ago
• waldronlab / lefser
  R implementation of the LEfSe method
  ☆59Updated 5 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
• 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
• shandley / Microbiome-Analysis-Using-R
  Microbiome Analysis Using R Workshop originally organized for the 2018 ASM General Meeting in Atlanta, GA, but regularly updated since.
  ☆27Updated 3 years ago
• david-barnett / microViz
  R package for microbiome data visualization and statistics. Uses phyloseq, vegan and the tidyverse. Docker image available.
  ☆120Updated 2 months ago
• Russel88 / DAtest
  Compare different differential abundance and expression methods
  ☆52Updated 3 years ago
• SchlossLab / schtools
  Schloss Lab Tools for Reproducible Microbiome Research 💩
  ☆31Updated 2 years ago
• FrederickHuangLin / ANCOMBC
  Differential abundance (DA) and correlation analyses for microbial absolute abundance data
  ☆125Updated last month
• 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
• ying14 / yingtools2
  Ying's tools for analysis, with particular focus on microbiome data
  ☆41Updated this week
• lch14forever / microbiomeViz
  Visualize microbiome data with black magic ggtree
  ☆68Updated 5 years ago
• KasperSkytte / ampvis2
  Tools for visualising microbial community amplicon data
  ☆69Updated last month
• vallenderlab / MicrobiomeR
  A comprehensive and customizable R package for microbiome analysis.
  ☆23Updated last month
• wejlab / animalcules
  R shiny app for interactive microbiome analysis
  ☆56Updated 4 months ago
• brendankelly / micropower
  power estimation for microbiome studies analyzed with pairwise distances and PERMANOVA
  ☆39Updated 9 years ago
• microsud / dysbiosisR
  The dysbiosisR package implements tools for calculating some common microbiome dysbiosis measures
  ☆15Updated 2 years ago
• umerijaz / microbiomeSeq
  An R package for microbial community analysis in an environmental context
  ☆67Updated 5 years ago
• yijuanhu / LDM-Archive
  Linear Decomposition Model
  ☆25Updated 2 years ago
• drostlab / orthologr
  Genome wide orthology inference and dNdS estimation
  ☆96Updated last month
• sherrillmix / taxonomizr
  Parse NCBI taxonomy and accessions to find taxonomic assignments
  ☆77Updated 2 months 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…
  ☆62Updated 3 years ago
• microsud / microbiomeutilities
  The is mostly a wrapper tool using phyloseq and microbiome R packages.
  ☆33Updated 2 years ago
• YongxinLiu / Zhang2019NBT
  Scripts for stat and plot figures in rice microbiome paper
  ☆30Updated 11 months ago
• adw96 / DivNet
  diversity estimation under ecological networks
  ☆83Updated 2 months ago
• ChiLiubio / file2meco
  Transform files to the microtable object with microeco package
  ☆28Updated last month
• YuLab-SMU / plotting-tree-with-data-using-ggtreeExtra
  ☆26Updated 4 years ago
• biobakery / melonnpan
  Model-based Genomically Informed High-dimensional Predictor of Microbial Community Metabolic Profiles
  ☆39Updated last year