Alternatives and similar repositories for MTD

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

• YuLab-SMU / MicrobiomeProfiler
  A shiny package for microbiome functional enrichment analysis
  ☆37Updated last month
• biobakery / melonnpan
  Model-based Genomically Informed High-dimensional Predictor of Microbial Community Metabolic Profiles
  ☆35Updated last year
• GRONINGEN-MICROBIOME-CENTRE / DMP
  Codes and sample data supporting the Dutch Microbiome Project. The preprint is currently available at https://www.biorxiv.org/content/10.…
  ☆34Updated 3 years ago
• twbattaglia / btools
  A set of R functions that help faciliate a lot of tedious processing
  ☆18Updated 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 last year
• shihuang047 / re-benchmarking
  ☆15Updated 4 years ago
• thomazbastiaanssen / Tjazi
  A microbiome analysis toolkit for R
  ☆22Updated last year
• jbisanz / MicrobeR
  Handy tools for Microbiome analysis in R
  ☆18Updated 6 years ago
• wdl2459 / ConQuR
  Batch effects removal for microbiome data via conditional quantile regression
  ☆28Updated 2 years ago
• borenstein-lab / mimosa2
  ☆13Updated 5 months ago
• Gibbons-Lab / mbtools
  R package for microbiome analysis. Provides helper functions for common workflows ranging from preprocessing to visualization.
  ☆23Updated last year
• zifanzhu / MicroPro
  A microbial profiling framework for metagenomic analysis
  ☆24Updated 5 years ago
• SegataLab / cmseq
  Set of utilities on sequences and BAM files
  ☆27Updated 3 years ago
• gtonkinhill / TCGA_analysis
  ☆27Updated last year
• janepipistrelle / bacterial_GWAS_tutorial
  Tutorial for bacterial GWAS pipline and bugwas, created for Bodega Bay 2016 NGS workshop
  ☆18Updated 9 years ago
• microbiome-resources / Qiime2-Microbiome-workshop
  ☆15Updated 2 years ago
• EnvGen / DEGEPRIME
  A program for degenerate primer design for broad taxonomic-range PCR for microbial ecology studies
  ☆30Updated last year
• ignasrum / hocort
  HoCoRT - Remove specific organisms from sequencing reads
  ☆16Updated 5 months ago
• SegataLab / metamlst
  MetaMLST is a computational tool for in-silico Multi-Locus Sequence Typing from metagenomic data.
  ☆16Updated 2 years ago
• xiaolw95 / NetMoss
  ☆14Updated 3 years ago
• raytonghk / genepiper
  GenePiper
  ☆12Updated 3 years ago
• smangul1 / MiCoP
  MiCoP is a method for high-accuracy profiling of viral and fungal metagenomic communities.
  ☆15Updated 3 years ago
• grp-bork / microbial_load_predictor
  R package to predict microbial loads
  ☆15Updated last week
• segalab / SGVFinder
  ☆32Updated last year
• ZRChao / fastANCOM
  A fast method for analysis of composition of microbiomes
  ☆8Updated 3 years ago
• merenlab / MerenLab-workflows
  A repository with scripts to run pipeline that are commonly used in the Meren Lab
  ☆11Updated 7 years ago
• zjshi / snv_analysis_almeida2019
  ☆22Updated 5 years ago
• kosticlab / universe_of_genes_scripts
  Code for running the analysis in our universe of genes project
  ☆8Updated 6 years ago
• drostlab / myTAI
  Evolutionary Transcriptomics with R
  ☆43Updated last week
• abodein / timeOmics
  Time-Course Multi-Omics data integration
  ☆25Updated last year