Alternatives and similar repositories for animalcules

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

• YuLab-SMU / MicrobiomeProfiler
  A shiny package for microbiome functional enrichment analysis
  ☆37Updated 3 weeks ago
• hildebra / lotus2
  Amplicon sequencing pipelines suitable for SSU (16S, 18S), LSU (23S, 28S) and ITS.
  ☆53Updated 4 months 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 2 years ago
• biobakery / melonnpan
  Model-based Genomically Informed High-dimensional Predictor of Microbial Community Metabolic Profiles
  ☆35Updated last year
• vallenderlab / MicrobiomeR
  A comprehensive and customizable R package for microbiome analysis.
  ☆23Updated 2 years ago
• benjjneb / LRASManuscript
  Reproducible Analyses accompanying DADA2 + PacBio Manuscript
  ☆33Updated 4 years ago
• SchlossLab / schtools
  Schloss Lab Tools for Reproducible Microbiome Research 💩
  ☆31Updated last year
• zifanzhu / MicroPro
  A microbial profiling framework for metagenomic analysis
  ☆24Updated 5 years ago
• victoriapascal / gutsmash
  gutSMASH
  ☆53Updated 4 months ago
• microsud / microbiomeutilities
  The is mostly a wrapper tool using phyloseq and microbiome R packages.
  ☆34Updated 2 years ago
• Russel88 / DAtest
  Compare different differential abundance and expression methods
  ☆51Updated 3 years ago
• microsud / dysbiosisR
  The dysbiosisR package implements tools for calculating some common microbiome dysbiosis measures
  ☆15Updated 2 years ago
• thomazbastiaanssen / Tjazi
  A microbiome analysis toolkit for R
  ☆22Updated last year
• bhattlab / bhattlab_workflows
  Computational workflows for metagenomics tasks, by the Bhatt lab
  ☆47Updated 2 years ago
• microbiome / mia
  Microbiome analysis
  ☆51Updated this week
• cafferychen777 / MicrobiomeStat
  Track, Analyze, Visualize: Unravel Your Microbiome's Temporal Pattern with MicrobiomeStat
  ☆41Updated this week
• twbattaglia / btools
  A set of R functions that help faciliate a lot of tedious processing
  ☆18Updated 6 years ago
• FEI38750 / MTD
  MTD: a unique pipeline for host and meta-transcriptome joint and integrative analyses of RNA-seq data
  ☆16Updated last year
• lch14forever / microbiomeViz
  Visualize microbiome data with black magic ggtree
  ☆68Updated 4 years ago
• knights-lab / SHOGUN
  SHallow shOtGUN profiler
  ☆53Updated 3 years ago
• knightlab-analyses / reference-frames
  ☆20Updated 4 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
• ngs-docs / 2017-ucsc-metagenomics
  Workshop materials for shotgun metagenomics
  ☆36Updated 7 years ago
• GenomicsAotearoa / metagenomics_summer_school
  Course materials for the Genomics Aotearoa Metagenomics Summer School, to be hosted at the University of Auckland in Septermber
  ☆58Updated 8 months ago
• gavinmdouglas / picrust2_manuscript
  ☆23Updated 4 years ago
• dcdanko / MD2
  MicrobeDirectory 2.0
  ☆22Updated 4 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
• waldronlab / lefser
  R implementation of the LEfSe method
  ☆58Updated 3 weeks ago
• ChiLiubio / file2meco
  Transform files to the microtable object with microeco package
  ☆27Updated last month
• ying14 / yingtools2
  Ying's tools for analysis, with particular focus on microbiome data
  ☆41Updated last month