Alternatives and similar repositories for BioProtocol

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

• ryanjw / co-occurrence
  R scripts for performing co-occurrence analyses
  ☆35Updated 10 years ago
• Russel88 / MicEco
  Various functions for analysis of microbial community data
  ☆47Updated last month
• microbiota / amplicon
  Statistics and visualization for amplicon data
  ☆72Updated 2 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
• danknights / sourcetracker
  ☆78Updated last year
• ChiLiubio / file2meco
  Transform files to the microtable object with microeco package
  ☆28Updated 2 weeks ago
• YongxinLiu / Zhang2018SCLS
  Rice (Oryza Sative) root microbiome time-course analysis. (Zhang2018SCLS)
  ☆31Updated 6 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
• tobiasgf / lulu
  r package for post-clustering curation of amplicon next generation sequencing data (metabarcoding)
  ☆71Updated last year
• Linwei-Wu / Global-bacterial-diversity-in-WWTPs
  ☆23Updated 6 years ago
• benjjneb / LRASManuscript
  Reproducible Analyses accompanying DADA2 + PacBio Manuscript
  ☆33Updated 5 years ago
• Mengting-Maggie-Yuan / warming-network-complexity-stability
  Computer code for the manuscript "Climate Warming Enhances Microbial Network Complexity and Stability"
  ☆50Updated 3 years ago
• Lagkouvardos / Rhea
  A set of R scripts for the analysis of microbial profiles
  ☆41Updated last year
• mestaki / qiime2-to-BugBase
  ☆12Updated 4 years ago
• david-barnett / microViz
  R package for microbiome data visualization and statistics. Uses phyloseq, vegan and the tidyverse. Docker image available.
  ☆122Updated 3 months ago
• ChengGaoBerkeley / EPICON.Mycobiome
  ☆13Updated 4 years ago
• lch14forever / microbiomeViz
  Visualize microbiome data with black magic ggtree
  ☆68Updated 5 years ago
• frederic-mahe / swarm
  A robust and fast clustering method for amplicon-based studies
  ☆31Updated 2 years ago
• caporaso-lab / sourcetracker2
  SourceTracker2
  ☆80Updated last year
• umerijaz / microbiomeSeq
  An R package for microbial community analysis in an environmental context
  ☆67Updated 5 years ago
• Russel88 / DAtest
  Compare different differential abundance and expression methods
  ☆52Updated 3 years ago
• GuillemSalazar / EcolUtils
  Utilities for community ecology analysis
  ☆19Updated 5 years ago
• waldronlab / lefser
  R implementation of the LEfSe method
  ☆61Updated this week
• 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 2 weeks ago
• daisybio / namco
  ☆11Updated 7 months ago
• knights-lab / BugBase
  ☆41Updated 7 years 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 5 years ago
• FrederickHuangLin / ANCOMBC
  Differential abundance (DA) and correlation analyses for microbial absolute abundance data
  ☆126Updated 2 months ago
• moyn413 / nifHdada2
  dada2 formatted nifH database
  ☆12Updated last year
• rogotoh / PMiFish
  ☆12Updated last year