Alternatives and similar repositories for shaman:

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

• vallenderlab / MicrobiomeR
  A comprehensive and customizable R package for microbiome analysis.
  ☆21Updated 2 years ago
• ying14 / yingtools2
  Ying's tools for analysis, with particular focus on microbiome data
  ☆41Updated 2 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
• jgolob / maliampi
  Maximum Likelihood Amplicon Pipeline
  ☆22Updated 9 months ago
• ScientistJake / Shiny_BLAST
  ☆17Updated 6 years ago
• gschofl / reutils
  Talk to the NCBI EUtils
  ☆22Updated 4 years ago
• SchlossLab / schtools
  Schloss Lab Tools for Reproducible Microbiome Research 💩
  ☆30Updated last year
• fkeck / bioseq
  A Toolbox for Manipulating Biological Sequences in R
  ☆22Updated 2 years ago
• microsud / dysbiosisR
  The dysbiosisR package implements tools for calculating some common microbiome dysbiosis measures
  ☆14Updated 2 years ago
• tbradley1013 / tree-subset-shiny
  This repo contains the code for a shiny app that allows for visualization of subset phylogenetic trees
  ☆15Updated 6 years ago
• arendsee / rhmmer
  Simple R utilities for working with HMMER
  ☆18Updated 5 months ago
• gmbecker / genbankr
  ☆19Updated last year
• tmbuza / iMAP
  iMAP v1.0 (Pre-release): Integrated Microbiome Analysis Pipeline
  ☆13Updated 10 months ago
• itsmisterbrown / microfiltR
  accessory functions for processing microbial community data
  ☆12Updated 2 years ago
• yijuanhu / LDM-Archive
  Linear Decomposition Model
  ☆24Updated last year
• ggloor / CoDa_microbiome_tutorial
  Workshop for NGS'18 conference, Barcelona 2018
  ☆24Updated 6 years ago
• GMOD / JBrowseR
  R interface to the JBrowse 2 Linear Genome View.
  ☆35Updated last year
• statdivlab / tinyvamp
  ☆19Updated last year
• jbisanz / MicrobeR
  Handy tools for Microbiome analysis in R
  ☆18Updated 5 years ago
• twbattaglia / btools
  A set of R functions that help faciliate a lot of tedious processing
  ☆18Updated 6 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
• guokai8 / microbial
  Do microbiome analysis with dada2 and phyloseq object
  ☆13Updated 5 months ago
• gosling-lang / grosling
  R interface to 'Gos'
  ☆38Updated 2 years ago
• pcastellanoescuder / POMA
  Omics Data Analysis Tools
  ☆11Updated 3 months ago
• lvulliard / BioCircos.R
  Htmlwidgets binding R commands to the BioCircos.js library
  ☆37Updated 5 years ago
• Gibbons-Lab / mbtools
  R package for microbiome analysis. Provides helper functions for common workflows ranging from preprocessing to visualization.
  ☆23Updated last year
• GuangchuangYu / plotTree-ggtree
  ggtree version of plotTree.R
  ☆18Updated 6 years ago
• biobakery / melonnpan
  Model-based Genomically Informed High-dimensional Predictor of Microbial Community Metabolic Profiles
  ☆35Updated 11 months ago
• YuLab-SMU / MicrobiomeProfiler
  A shiny package for microbiome functional enrichment analysis
  ☆38Updated 4 months ago
• statdivlab / stamps2019
  statdivlab's teaching materials for STAMPS @ the MBL in 2019
  ☆12Updated 5 years ago