Alternatives and similar repositories for microbiomeSeq:

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

• 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
• lch14forever / microbiomeViz
  Visualize microbiome data with black magic ggtree
  ☆68Updated 4 years ago
• adw96 / DivNet
  diversity estimation under ecological networks
  ☆83Updated last year
• Russel88 / DAtest
  Compare different differential abundance and expression methods
  ☆51Updated 3 years ago
• microsud / microbiomeutilities
  The is mostly a wrapper tool using phyloseq and microbiome R packages.
  ☆34Updated 2 years ago
• Lagkouvardos / Rhea
  A set of R scripts for the analysis of microbial profiles
  ☆41Updated 10 months ago
• schuyler-smith / phylosmith
  functions for analyzing phyloseq data
  ☆27Updated 2 months 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
• HCBravoLab / metagenomeSeq
  Statistical analysis for sparse high-throughput sequencing
  ☆69Updated 4 months ago
• benjjneb / LRASManuscript
  Reproducible Analyses accompanying DADA2 + PacBio Manuscript
  ☆33Updated 4 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 last month
• FrederickHuangLin / ANCOMBC
  Differential abundance (DA) and correlation analyses for microbial absolute abundance data
  ☆121Updated last month
• hildebra / lotus2
  Amplicon sequencing pipelines suitable for SSU (16S, 18S), LSU (23S, 28S) and ITS.
  ☆53Updated 3 months ago
• KasperSkytte / ampvis2
  Tools for visualising microbial community amplicon data
  ☆67Updated 10 months ago
• mikemc / speedyseq
  Speedy versions of phyloseq functions
  ☆48Updated 11 months ago
• waldronlab / lefser
  R implementation of the LEfSe method
  ☆58Updated last month
• tobiasgf / lulu
  r package for post-clustering curation of amplicon next generation sequencing data (metabarcoding)
  ☆65Updated last year
• yhwu / idemp
  Barcode demultiplex for Illumina I1, R1, R2 fastq.gz files
  ☆31Updated 7 years ago
• ryanjw / co-occurrence
  R scripts for performing co-occurrence analyses
  ☆34Updated 10 years ago
• ChiLiubio / file2meco
  Transform files to the microtable object with microeco package
  ☆26Updated 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…
  ☆62Updated 2 years ago
• vallenderlab / MicrobiomeR
  A comprehensive and customizable R package for microbiome analysis.
  ☆23Updated 2 years ago
• knights-lab / SHOGUN
  SHallow shOtGUN profiler
  ☆53Updated 3 years ago
• Russel88 / MicEco
  Various functions for analysis of microbial community data
  ☆43Updated 2 years ago
• sherrillmix / taxonomizr
  Parse NCBI taxonomy and accessions to find taxonomic assignments
  ☆74Updated last month
• vmikk / metagMisc
  Miscellaneous functions for metagenomic analysis.
  ☆49Updated 3 weeks ago
• ggloor / CoDaSeq
  Functions for compositional analysis of high throughput sequencing
  ☆29Updated last year
• microsud / Tools-Microbiome-Analysis
  A list of R environment based tools for microbiome data exploration, statistical analysis and visualization
  ☆113Updated 2 years ago
• danknights / sourcetracker
  ☆73Updated last year
• Nick243 / Introduction-to-Metagenomics-Summer-Workshop-2019
  Data, scripts, and lectures for the Introduction to Metagenomics Summer Workshop 2019.
  ☆32Updated 5 years ago