Alternatives and similar repositories for phyloseq-extended:

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

• Russel88 / MicEco
  Various functions for analysis of microbial community data
  ☆42Updated 2 years ago
• mikemc / speedyseq
  Speedy versions of phyloseq functions
  ☆46Updated 8 months ago
• brendanf / FUNGuildR
  Look Up Guild Information for Fungi in R
  ☆19Updated last year
• gmteunisse / fantaxtic
  Fantaxtic - Nested Bar Plots for Phyloseq Data
  ☆27Updated 6 months ago
• frederic-mahe / swarm
  A robust and fast clustering method for amplicon-based studies
  ☆31Updated last year
• vmikk / metagMisc
  Miscellaneous functions for metagenomic analysis.
  ☆47Updated 6 months ago
• yhwu / idemp
  Barcode demultiplex for Illumina I1, R1, R2 fastq.gz files
  ☆31Updated 7 years ago
• schuyler-smith / phylosmith
  functions for analyzing phyloseq data
  ☆26Updated last week
• ryanjw / co-occurrence
  R scripts for performing co-occurrence analyses
  ☆34Updated 10 years ago
• VascoElbrecht / JAMP
  JAMP - Just Another Metabarcoding Pipeline
  ☆32Updated 3 years ago
• tobiasgf / lulu
  r package for post-clustering curation of amplicon next generation sequencing data (metabarcoding)
  ☆63Updated last year
• metabaRfactory / metabaR
  metabaR is an R package to curate and visualise DNA metabarcoding data after basic bioinformatics analyses.
  ☆13Updated 2 years ago
• Lagkouvardos / Rhea
  A set of R scripts for the analysis of microbial profiles
  ☆41Updated 7 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
• frederic-mahe / stampa
  Sequence Taxonomic Assignment by Massive Pairwise Alignments
  ☆14Updated last year
• MadsAlbertsen / ampvis
  [deprecated] Please use ampvis2
  ☆8Updated 7 years ago
• nextgenusfs / amptk
  AMPtk: Amplicon ToolKit for NGS data (formally UFITS)
  ☆38Updated last year
• Russel88 / DAtest
  Compare different differential abundance and expression methods
  ☆50Updated 2 years ago
• adw96 / DivNet
  diversity estimation under ecological networks
  ☆83Updated last year
• moyn413 / nifHdada2
  dada2 formatted nifH database
  ☆11Updated 8 months ago
• GuillemSalazar / EcolUtils
  Utilities for community ecology analysis
  ☆18Updated 4 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 2 years ago
• danknights / sourcetracker
  ☆70Updated last year
• sherrillmix / taxonomizr
  Parse NCBI taxonomy and accessions to find taxonomic assignments
  ☆70Updated 3 weeks 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
• ErnakovichLab / dada2_ernakovichlab
  ☆14Updated this week
• VascoElbrecht / PrimerMiner
  R mased batch sequence downloader, with primer development and in silico evaluation capabilities
  ☆33Updated 2 months ago
• bulksoil / BioProtocol
  Repo for a Microbiome Protocol
  ☆9Updated 6 years ago
• ChiLiubio / file2meco
  Transform files to the microtable object with microeco package
  ☆24Updated last month