Alternatives and similar repositories for microbiomeHD

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

• thomasgurry / amplicon_sequencing_pipeline
  Pipeline for computing OTU tables from 16S or ITS amplicon sequencing data.
  ☆31Updated last year
• HCBravoLab / metagenomeSeq
  Statistical analysis for sparse high-throughput sequencing
  ☆69Updated 5 months ago
• 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 2 years ago
• nearinj / Comparison_of_DA_microbiome_methods
  ☆56Updated last year
• waldronlab / curatedMetagenomicData
  Curated Metagenomic Data of the Human Microbiome
  ☆133Updated 2 weeks ago
• twbattaglia / MicrobeDS
  A repository for large-scale microbiome datasets, formatted for phyloseq
  ☆38Updated last year
• biocore / mmvec
  Neural networks for microbe-metabolite interaction analysis
  ☆120Updated 2 years ago
• karkman / MetagenomeCourse2019
  Course material for the metagenomics course
  ☆44Updated 3 years ago
• victoriapascal / gutsmash
  gutSMASH
  ☆53Updated 5 months ago
• grimmlab / MicrobiomeBestPracticeReview
  Current Challenges and Best Practice Protocols for Microbiome Analysis using Amplicon and Metagenomic Sequencing
  ☆119Updated last year
• sherrillmix / taxonomizr
  Parse NCBI taxonomy and accessions to find taxonomic assignments
  ☆74Updated 2 months ago
• Russel88 / DAtest
  Compare different differential abundance and expression methods
  ☆51Updated 3 years ago
• knights-lab / SHOGUN
  SHallow shOtGUN profiler
  ☆54Updated 3 years ago
• borenstein-lab / microbiome-metabolome-curated-data
  ☆69Updated 7 months ago
• microsud / Tools-Microbiome-Analysis
  A list of R environment based tools for microbiome data exploration, statistical analysis and visualization
  ☆115Updated 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…
  ☆71Updated 2 years ago
• gavinmdouglas / picrust2_manuscript
  ☆23Updated 5 years ago
• Sydney-Informatics-Hub / Shotgun-Metagenomics-Analysis
  Analysis of metagenomic shotgun sequences including assembly, speciation, ARG discovery and more
  ☆32Updated 2 years ago
• microbiota / Zhang2019NBT
  Scripts for stat and plot figures in rice microbiome paper
  ☆19Updated 6 years ago
• microbiome / mia
  Microbiome analysis
  ☆51Updated last week
• knightlab-analyses / reference-frames
  ☆20Updated 5 years ago
• FrederickHuangLin / ANCOM-BC-Code-Archive
  Archive: Data, scripts, and outputs for the Nat. Comm. paper "Analysis of Composition of Microbiomes with Bias Correction". Please check …
  ☆30Updated 4 years ago
• GRONINGEN-MICROBIOME-CENTRE / Groningen-Microbiome
  Microbiome Projects from the Department of Genetics and Department of Gastroenterology and Hepatology , University Medical Centre Groning…
  ☆57Updated this week
• MVesuviusC / primerTree
  PrimerTree: Visually Assessing the Specificity and Informativeness of Primer Pairs
  ☆52Updated last year
• lch14forever / microbiomeViz
  Visualize microbiome data with black magic ggtree
  ☆68Updated 4 years ago
• bhattlab / kraken2_classification
  Snakemake workflow for metagenomic classification with Kraken2
  ☆65Updated 2 years ago
• zellerlab / crc_meta
  Code and analysis results for the CRC shotgun meta-analysis
  ☆39Updated 2 years ago
• danknights / mice8992-2016
  Code used in MiCE 8992 Spring 2016
  ☆43Updated 9 years ago
• sanger-pathogens / pathogen-informatics-training
  ☆70Updated 4 years ago
• ToniWestbrook / paladin
  Protein Alignment and Detection Interface
  ☆61Updated last year