Alternatives and similar repositories for SpiecEasi

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

• stefpeschel / NetCoMi
  Network construction, analysis, and comparison for microbial compositional data
  ☆167Updated 3 months ago
• yiluheihei / microbiomeMarker
  R package for microbiome biomarker discovery
  ☆185Updated 4 months ago
• FrederickHuangLin / ANCOMBC
  Differential abundance (DA) and correlation analyses for microbial absolute abundance data
  ☆123Updated last month
• microbiome / microbiome
  microbiome R package
  ☆300Updated 6 months ago
• jbisanz / qiime2R
  Import qiime2 artifacts to R
  ☆172Updated 6 months ago
• ChiLiubio / microeco
  An R package for data analysis in microbial community ecology
  ☆232Updated last week
• benjjneb / decontam
  Simple statistical identification and removal of contaminants in marker-gene and metagenomics sequencing data
  ☆158Updated 2 years ago
• cafferychen777 / ggpicrust2
  Make Picrust2 Output Analysis and Visualization Easier
  ☆138Updated last week
• statdivlab / corncob
  Count Regression for Correlated Observations with the Beta-binomial
  ☆106Updated 3 months ago
• picrust / picrust
  Phylogenetic Investigation of Communities by Reconstruction of Unobserved STates (PICRUST): Official repository for software and unit tes…
  ☆91Updated 3 years ago
• microsud / Tools-Microbiome-Analysis
  A list of R environment based tools for microbiome data exploration, statistical analysis and visualization
  ☆115Updated 2 years ago
• benjjneb / dada2
  Accurate sample inference from amplicon data with single nucleotide resolution
  ☆505Updated 2 months ago
• YuLab-SMU / MicrobiotaProcess
  A comprehensive R package for deep mining microbiome
  ☆190Updated 2 months ago
• UMNFuN / FUNGuild
  FUNGuild: parsing OTUs into functional guilds
  ☆119Updated last year
• taowenmicro / ggClusterNet
  Microbial ecological network visualization clustering
  ☆120Updated 3 months ago
• david-barnett / microViz
  R package for microbiome data visualization and statistics. Uses phyloseq, vegan and the tidyverse. Docker image available.
  ☆114Updated 2 months ago
• biobakery / Maaslin2
  MaAsLin2: Microbiome Multivariate Association with Linear Models
  ☆142Updated 7 months ago
• xia-lab / MicrobiomeAnalystR
  A companion R package for the MicrobiomeAnalyst web server
  ☆125Updated 3 weeks ago
• KlausVigo / phangorn
  Phylogenetic analysis in R
  ☆207Updated last week
• DaliangNing / iCAMP1
  Infer Community Assembly Mechanisms by Phylogenetic bin-based null model analysis (Version 1)
  ☆78Updated 4 months ago
• songweizhi / Tax4Fun2_short_tutorial
  A short tutorial for Tax4Fun2
  ☆19Updated 10 months ago
• picrust / picrust2
  Code, unit tests, and tutorials for running PICRUSt2
  ☆361Updated 2 months ago
• microbiota / amplicon
  Statistics and visualization for amplicon data
  ☆70Updated 2 years ago
• danknights / sourcetracker
  ☆75Updated last year
• adw96 / DivNet
  diversity estimation under ecological networks
  ☆83Updated 2 months ago
• waldronlab / curatedMetagenomicData
  Curated Metagenomic Data of the Human Microbiome
  ☆135Updated 3 weeks ago
• cozygene / FEAST
  Fast expectation maximization for microbial source tracking
  ☆125Updated last year
• ryanjw / co-occurrence
  R scripts for performing co-occurrence analyses
  ☆34Updated 10 years ago
• microbiome / OMA
  Orchestrating Microbiome Analysis
  ☆98Updated last week
• 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