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microbiome
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35 search results found
Dada2
⭐
428
Accurate sample inference from amplicon data with single nucleotide resolution
Microbiome
⭐
257
microbiome R package
Microbiomemarker
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151
R package for microbiome biomarker discovery
Microbiotaprocess
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150
🦠 A comprehensive R package for deep mining microbiome
Decontam
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122
Simple statistical identification and removal of contaminants in marker-gene and metagenomics sequencing data
Ancombc
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87
Differential abundance (DA) and correlation analyses for microbial absolute abundance data
Maaslin2
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86
MaAsLin2: Microbiome Multivariate Association with Linear Models
Microviz
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80
R package for microbiome data visualization and statistics. Uses phyloseq, vegan and the tidyverse. Docker image available.
Oma
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69
Orchestrating Microbiome Analysis
Ggpicrust2
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59
Make Picrust2 Output Analysis and Visualization Easier
Ancom Code Archive
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47
R functions for Analysis of Composition of Microbiomes (ANCOM).
Microbiomeexplorer
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44
The Microbiome Explorer provides methods to analyze and visualize microbial community sequencing data either from the R command line or through a Shiny application. Written by Janina Reeder and Joseph N. Paulson.
Mia
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42
Microbiome analysis
Sccomp
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37
Robust differential composition and variability analysis for single-cell data
Microbiomeviz
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36
Visualize microbiome data with black magic ggtree
Datest
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34
Compare different differential abundance and expression methods
Microbiomeutilities
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29
The is mostly a wrapper tool using phyloseq and microbiome R packages.
Miceco
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28
Various functions for analysis of microbial community data
Schtools
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26
Schloss Lab Tools for Reproducible Microbiome Research 💩
Melonnpan
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24
Model-based Genomically Informed High-dimensional Predictor of Microbial Community Metabolic Profiles
Tweedieverse
⭐
24
Differential analysis of multi-omics data based on the Tweedie distribution
Microbiomestat
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18
Track, Analyze, Visualize: Unravel Your Microbiome's Temporal Pattern with MicrobiomeStat
Microbiomer
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17
A comprehensive R package for microbiome analysis.
Rcm
⭐
16
A model-based visualization method for microbiome data
Fantaxtic
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14
Fantaxtic - Nested Bar Plots for Phyloseq Data
Microbial Bioinformatics Introductory Course Material 2018
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12
Course material for OPEN & REPRODUCIBLE MICROBIOME DATA ANALYSIS SPRING SCHOOL
Sze_obesity_mbio_2016
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11
Mtd
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8
MTD: a unique pipeline for host and meta-transcriptome joint and integrative analyses of RNA-seq data
16s Rdna V3 V4
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8
16S rDNA V3-V4 amplicon sequencing analysis using dada2, phyloseq, LEfSe, picrust2 and other tools. Demo: https://ycl6.github.io/16S-Demo/
Mdpbiome
⭐
7
microbiome engineering through prescriptive perturbations
Miaviz
⭐
7
Microbiome Analysis Plotting and Visualization
Microbiomedatasets
⭐
6
Experiment Hub based microbiome datasets
Microbial
⭐
6
Do microbiome analysis with dada2 and phyloseq object
Benchdamic
⭐
5
Benchmark of differential abundance methods on microbiome data
Microbiome
⭐
5
The standardized analysis pipeline used for analyzing 16S and metagenome data.
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