microbiome / OMA

Related projects: ⓘ

• biobakery / Maaslin2
  MaAsLin2: Microbiome Multivariate Association with Linear Models
  ☆112Updated 2 months ago
• microbiome / mia
  Microbiome analysis
  ☆47Updated this week
• FrederickHuangLin / ANCOMBC
  Differential abundance (DA) and correlation analyses for microbial absolute abundance data
  ☆104Updated 3 weeks ago
• HCBravoLab / metagenomeSeq
  Statistical analysis for sparse high-throughput sequencing
  ☆65Updated 6 months ago
• Sydney-Informatics-Hub / Shotgun-Metagenomics-Analysis
  Analysis of metagenomic shotgun sequences including assembly, speciation, ARG discovery and more
  ☆26Updated last year
• grimmlab / MicrobiomeBestPracticeReview
  Current Challenges and Best Practice Protocols for Microbiome Analysis using Amplicon and Metagenomic Sequencing
  ☆107Updated 4 months ago
• BradyAJohnston / plasmapR
  Creating plasmid maps inside ggplot.
  ☆79Updated 5 months ago
• cafferychen777 / ggpicrust2
  Make Picrust2 Output Analysis and Visualization Easier
  ☆101Updated 5 months ago
• nearinj / Comparison_of_DA_microbiome_methods
  ☆53Updated 6 months ago
• lch14forever / microbiomeViz
  Visualize microbiome data with black magic ggtree
  ☆68Updated 4 years ago
• microsud / Tools-Microbiome-Analysis
  A list of R environment based tools for microbiome data exploration, statistical analysis and visualization
  ☆109Updated last year
• zoecastillo / microbiomeExplorer
  The Microbiome Explorer provides methods to analyze and visualize microbial community sequencing data either from the R command line or t…
  ☆69Updated 2 years ago
• david-barnett / microViz
  R package for microbiome data visualization and statistics. Uses phyloseq, vegan and the tidyverse. Docker image available.
  ☆100Updated this week
• hzi-bifo / RiboDetector
  Accurate and rapid RiboRNA sequences Detector based on deep learning
  ☆96Updated 8 months ago
• FrederickHuangLin / ANCOM-Code-Archive
  Archive: R functions for Analysis of Composition of Microbiomes (ANCOM). Please check our ANCOMBC R package for the most up-to-date ANCOM…
  ☆57Updated 2 years ago
• umerijaz / microbiomeSeq
  An R package for microbial community analysis in an environmental context
  ☆66Updated 3 years ago
• Russel88 / DAtest
  Compare different differential abundance and expression methods
  ☆49Updated 2 years ago
• waldronlab / lefser
  R implementation of the LEfSe method
  ☆43Updated this week
• sherrillmix / taxonomizr
  Parse NCBI taxonomy and accessions to find taxonomic assignments
  ☆69Updated 9 months ago
• biobakery / biobakery_workflows
  bioBakery workflows is a collection of workflows and tasks for executing common microbial community analyses using standardized, validate…
  ☆98Updated this week
• benjjneb / decontam
  Simple statistical identification and removal of contaminants in marker-gene and metagenomics sequencing data
  ☆145Updated last year
• hildebra / lotus2
  Amplicon sequencing pipelines suitable for SSU (16S, 18S), LSU (23S, 28S) and ITS.
  ☆52Updated 3 weeks ago
• drostlab / orthologr
  Genome wide orthology inference and dNdS estimation
  ☆88Updated 11 months ago
• MaestSi / MetONTIIME
  A Meta-barcoding pipeline for analysing ONT data in QIIME2 framework
  ☆76Updated 3 months ago
• statdivlab / radEmu
  ☆46Updated 2 weeks ago
• xia-lab / MicrobiomeAnalystR
  A companion R package for the MicrobiomeAnalyst web server
  ☆113Updated 2 weeks ago
• HRGV / phyloFlash
  phyloFlash - A pipeline to rapidly reconstruct the SSU rRNAs and explore phylogenetic composition of an illumina (meta)genomic dataset.
  ☆77Updated 10 months ago
• picrust / picrust
  Phylogenetic Investigation of Communities by Reconstruction of Unobserved STates (PICRUST): Official repository for software and unit tes…
  ☆89Updated 2 years ago
• transcript / samsa2
  SAMSA pipeline, version 2.0. An open-source metatranscriptomics pipeline for analyzing microbiome data, built around DIAMOND and customi…
  ☆54Updated 5 months ago
• victoriapascal / gutsmash
  gutSMASH
  ☆51Updated 4 months ago