Alternatives and similar repositories for fido:

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

• reptalex / phylofactor
  ☆26Updated 11 months ago
• ggloor / ALDEx_bioc
  ALDEx_bioc is the working directory for updating bioconductor
  ☆28Updated 3 weeks ago
• biocore / DEICODE
  Robust Aitchison PCA from sparse count data
  ☆33Updated 2 years ago
• GraceYoon / SPRING
  Semi-parametric Rank-Based Correlation and Partial Correlation Estimation for Quantitative Microbiome Data
  ☆22Updated 2 years ago
• biocore / BIRDMAn
  Bayesian Inferential Regression for Differential Microbiome Analysis
  ☆22Updated last year
• nick-youngblut / traitar3
  From genomes to phenotypes: Traitar3, the microbial trait analyzer (for Python3)
  ☆22Updated 7 months ago
• snayfach / IGGdb
  Database of genomes integrated from the gut microbiome and other environments
  ☆44Updated 2 years ago
• biocore / wol
  Reference Phylogeny for Bacterial and Archaeal Genomes
  ☆25Updated 2 years ago
• borenstein-lab / fishtaco
  FishTaco (Functional Shifts Taxonomic Contributors) is a metagenomic computational framework that aims to identify the driver taxa of mic…
  ☆24Updated 3 years ago
• euba / BacArena
  agent based modelling
  ☆26Updated 5 months ago
• gavinmdouglas / POMS
  Phylogenetic Organization of Metagenomic Signals (POMS)
  ☆19Updated 2 years ago
• bsmith89 / StrainFacts
  Factorize metagenotypes to infer strains and their abundances
  ☆11Updated 4 months ago
• linsalrob / partie
  PARTIE is a program to partition sequence read archive (SRA) metagenomics data into amplicon and shotgun data sets. The user-supplied ann…
  ☆25Updated last year
• jgolob / maliampi
  Maximum Likelihood Amplicon Pipeline
  ☆22Updated 8 months ago
• ramellose / manta
  microbial association network clustering algorithm
  ☆13Updated last year
• 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
• lozuponelab / AMON
  Annotation of Metabolite Origin via Networks: A tool for predicting putative metabolite origins for microbes or between microbes and host…
  ☆21Updated 10 months ago
• larssnip / HumGut
  A healthy human gut genome collection
  ☆22Updated last year
• alvinxhan / PhyCLIP
  Phylogenetic Clustering by Linear Integer Programming (PhyCLIP)
  ☆17Updated 4 years ago
• pirovc / metameta
  ☆23Updated 5 years ago
• zhouhj1994 / LinDA
  ☆35Updated last year
• aweimann / traitar
  ☆22Updated last year
• jsilve24 / philr
  Phylogenetic Isometric Log Ratio
  ☆19Updated 4 months ago
• KoslickiLab / fmh-funprofiler
  A functional profiler for metagenomes using FracMinHash
  ☆15Updated this week
• MinJinHa / COZINE
  COmpositional Zero-Inflated Network Estimation
  ☆10Updated last year
• Gibbons-Lab / mbtools
  R package for microbiome analysis. Provides helper functions for common workflows ranging from preprocessing to visualization.
  ☆23Updated last year
• mikemc / differential-abundance-theory
  A manuscript exploring the effects of taxonomic bias on microbiome differential-abundance analysis.
  ☆12Updated last year
• 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
• biobakery / melonnpan
  Model-based Genomically Informed High-dimensional Predictor of Microbial Community Metabolic Profiles
  ☆35Updated 10 months ago
• blekhmanlab / biomehorizon
  Plot microbiome time series in parallel
  ☆25Updated last year