Alternatives and similar repositories for Microbiome:

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

• Gibbons-Lab / mbtools
  R package for microbiome analysis. Provides helper functions for common workflows ranging from preprocessing to visualization.
  ☆23Updated last year
• vallenderlab / MicrobiomeR
  A comprehensive and customizable R package for microbiome analysis.
  ☆23Updated 2 years ago
• YuLab-SMU / MicrobiomeProfiler
  A shiny package for microbiome functional enrichment analysis
  ☆38Updated 5 months ago
• jbisanz / MicrobeR
  Handy tools for Microbiome analysis in R
  ☆18Updated 5 years ago
• ZRChao / fastANCOM
  A fast method for analysis of composition of microbiomes
  ☆8Updated 2 years ago
• biobakery / melonnpan
  Model-based Genomically Informed High-dimensional Predictor of Microbial Community Metabolic Profiles
  ☆35Updated last year
• SchlossLab / schtools
  Schloss Lab Tools for Reproducible Microbiome Research 💩
  ☆30Updated last year
• microsud / microbiomeutilities
  The is mostly a wrapper tool using phyloseq and microbiome R packages.
  ☆34Updated 2 years ago
• FEI38750 / MTD
  MTD: a unique pipeline for host and meta-transcriptome joint and integrative analyses of RNA-seq data
  ☆16Updated 10 months ago
• katcoyte / MK-SpikeSeq
  Protocols, data and code associated with the MK-SpikeSeq method for quantifying the absolute abundances of microbiota samples
  ☆13Updated 3 years ago
• aametwally / MetaLonDA
  METAgenomic LONgitudinal Differential Abundance method
  ☆16Updated 5 years ago
• StewartLab / Stewart_TEDDY_Microbiome_Analysis
  Temporal Development of the Gut Microbiome in Early Childhood - The TEDDY Study
  ☆10Updated 6 years ago
• lozuponelab / AMON
  Annotation of Metabolite Origin via Networks: A tool for predicting putative metabolite origins for microbes or between microbes and host…
  ☆21Updated 11 months ago
• microbiome-resources / Qiime2-Microbiome-workshop
  ☆15Updated 2 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…
  ☆33Updated 4 years ago
• Nick243 / Introduction-to-Metagenomics-Summer-Workshop-2019
  Data, scripts, and lectures for the Introduction to Metagenomics Summer Workshop 2019.
  ☆32Updated 5 years ago
• guokai8 / microbial
  Do microbiome analysis with dada2 and phyloseq object
  ☆13Updated 5 months ago
• xiaolw95 / NetMoss
  ☆14Updated 2 years ago
• SchlossLab / Sze_Obesity_mBio_2016
  ☆12Updated 7 years ago
• jgolob / maliampi
  Maximum Likelihood Amplicon Pipeline
  ☆22Updated 10 months ago
• thomazbastiaanssen / Tjazi
  A microbiome analysis toolkit for R
  ☆22Updated last year
• CharlieCarpenter / tidyMicro
  tidyMicro GitHup Repository
  ☆17Updated 3 years ago
• audy / miseq-16S-pipeline
  HPC pipeline for overlapping V4 16S rRNA reads generated on Illumina MiSeq
  ☆11Updated 9 years ago
• biocore / greengenes2
  Processing support for Greengenes2
  ☆12Updated last year
• gavinmdouglas / picrust2_manuscript
  ☆23Updated 4 years ago
• twbattaglia / btools
  A set of R functions that help faciliate a lot of tedious processing
  ☆18Updated 6 years ago
• smangul1 / MiCoP
  MiCoP is a method for high-accuracy profiling of viral and fungal metagenomic communities.
  ☆15Updated 3 years ago
• FredHutch / nf-anvio-pangenome
  Analyze a set of genomes with the anvi'o pangenome pipeline
  ☆17Updated last year
• mblstamps / stamps2022
  Materials for the STAMPS 2022 course at the MBL in Woods Hole, MA, USA
  ☆20Updated 2 years ago
• KasperSkytte / mmgenome2
  Tools for extracting individual genomes from metagenomes
  ☆17Updated last year