Alternatives and similar repositories for phyloseq

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

• benjjneb / dada2
  Accurate sample inference from amplicon data with single nucleotide resolution
  ☆515Updated 3 weeks ago
• microbiome / microbiome
  microbiome R package
  ☆303Updated 2 weeks ago
• wilkox / gggenes
  ➡️️➡️️⬅️️➡️️ Draw gene arrow maps in ggplot2
  ☆556Updated 3 months ago
• thackl / gggenomes
  A grammar of graphics for comparative genomics
  ☆690Updated last month
• LangilleLab / microbiome_helper
  A repository of bioinformatic scripts, SOPs, and tutorials for analyzing microbiome data.
  ☆451Updated 7 months ago
• picrust / picrust2
  Code, unit tests, and tutorials for running PICRUSt2
  ☆364Updated 4 months ago
• YuLab-SMU / ggtree
  Visualization and annotation of phylogenetic trees
  ☆883Updated 3 weeks ago
• YinLiLin / CMplot
  📊 Circular and Rectangular Manhattan Plot
  ☆583Updated 4 months ago
• cooplab / popgen-notes
  Population genetics notes
  ☆673Updated 2 years ago
• ChiLiubio / microeco
  An R package for data analysis in microbial community ecology
  ☆241Updated this week
• kevinblighe / EnhancedVolcano
  Publication-ready volcano plots with enhanced colouring and labeling
  ☆438Updated last year
• zdk123 / SpiecEasi
  Sparse InversE Covariance estimation for Ecological Association and Statistical Inference
  ☆213Updated last week
• YuLab-SMU / clusterProfiler
  A universal enrichment tool for interpreting omics data
  ☆1,108Updated 3 months ago
• taowenmicro / EasyMicrobiomeR
  Using R language in microbiome analysis
  ☆335Updated 2 years ago
• thelovelab / DESeq2
  Differential expression of RNA-seq data using the Negative Binomial
  ☆404Updated 2 weeks ago
• yiluheihei / microbiomeMarker
  R package for microbiome biomarker discovery
  ☆187Updated 5 months ago
• qiime2 / qiime2
  Source for the QIIME 2 Framework (Q2F).
  ☆510Updated this week
• knausb / vcfR
  Tools to work with variant call format files
  ☆260Updated 5 months ago
• surh / scip_barplot
  Workshop materials for SFSU SCIP 2022.
  ☆14Updated 3 years ago
• jbisanz / qiime2R
  Import qiime2 artifacts to R
  ☆173Updated 7 months ago
• GRDI-GenARCC / tutorials-and-workshops
  ☆9Updated last year
• YongxinLiu / EasyAmplicon
  Easy Amplicon data analysis pipeline
  ☆310Updated last week
• compgenomr / book
  ☆362Updated 11 months ago
• shuojiao / Community-assembly-processes-and-species-coexistences-of-agricultural-soils-microbiome
  ☆21Updated 5 years ago
• YuLab-SMU / MicrobiotaProcess
  A comprehensive R package for deep mining microbiome
  ☆191Updated last month
• jtamames / SqueezeMeta
  A complete pipeline for metagenomic analysis
  ☆422Updated 3 weeks ago
• hbctraining / Training-modules
  Materials for short, half-day workshops
  ☆335Updated 2 weeks ago
• mmatschiner / tutorials
  Tutorials on phylogenetic and phylogenomic inference
  ☆387Updated last year
• vegandevs / vegan
  R package for community ecologists: popular ordination methods, ecological null models & diversity analysis
  ☆494Updated this week
• YongxinLiu / MicrobiomeStatPlot
  Interpretation and visualization of microbiome charts
  ☆491Updated 2 weeks ago