dada2
There are 43 repositories under dada2 topic.
aomlomics/tourmaline
Amplicon sequence processing workflow using QIIME 2 and Snakemake
cafferychen777/MicrobiomeStat
Track, Analyze, Visualize: Unravel Your Microbiome's Temporal Pattern with MicrobiomeStat
ycl6/16S-rDNA-V3-V4
16S rDNA V3-V4 amplicon sequencing analysis using dada2, phyloseq, LEfSe, picrust2 and other tools. Demo: https://ycl6.github.io/16S-Demo/
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.
quadram-institute-bioscience/dadaist2
Dadaist2 🟨 Highway to R
microUCPH/amplicon_data_analysis
Collection of notebooks describing the basic analysis workflow for a 16S rRNA gene amplicon sequencing project
adriaaula/dada2_guidelines
A repository with a general dada2 pipeline for amplicon processing
claraqin/neonMicrobe
Processing NEON soil microbe marker gene sequence data into ASV tables.
leholman/metabarTOAD
A metabarcoding pipeline for analysing Illumina amplicon data.
ycl6/16S-Demo
Working Demo on 16S rDNA V3-V4 amplicon sequencing analysis using dada2, phyloseq, LEfSe, picrust2 and other tools. Visit repo website for HTML output
BryanAbuchery/16S-rRNA-End-to-End-Analysis
Qiime2 and DADA2 are one of the latest bioinformatics tools used in 16S RNA analysis. The current Qiime2 and DADA2 pipelines support End to End 16S RNA analysis, among other analyses.
RemiMaglione/r-scripts
all my dirty r-scripts
sebrauschert/OceanOmics-amplicon
A pipeline to analyse marine fish amplicon data
erictleung/dada2HPCPipe
:ocean: 16S rRNA microbiome data analysis workflow using DADA2 and R on a high performance cluster using SLURM
Headonpillow/16S_analysis
A quick and user-friendly pipeline to go from raw fastq data from Illumina (paired-end sequencing) to processed ASVs and Taxonomic data.
IMCBioinformatics/dada2_16S_workflow
Amplicon sequencing workflow with snakemake and dada2
xuan13hao/data_analysis
Bioinformatic data analysis scripts and pipelines, using Machine Learning, PCA, Linear discriminant analysis Effect Size
gabrielatof/tesis-mic
En este repositorio se encuentran todos los scripts utilizados para mi tesis de licenciatura, titulada: "Análisis de perfiles funcionales de la microbiota intestinal de pacientes con trastorno depresivo mayor", la cual utiliza un lenguaje de programación en R y Phyton.
KatjaKo/PacBio_AMF
A workflow for processing CCS reads of AMF to ASVs using DADA2
RoyDibakar/National-Workshop-Microbiome-Informatics
National workshop on microbiome informatics
shandley/dada2-workflow
Generalized dada2 workflow. Refer to the wiki for help and troubleshooting.
ycl6/dada2
Accurate sample inference from amplicon data with single nucleotide resolution
best-tufts/intro_to_16S
Introduction to 16S Amplicon Sequencing Data Analysis using DADA2
DavideScarpetta/taxonomic_profiling
Metabarcoding analysis pipeline, using DADA2 and qiime2
digo4/Metagenomics
Here we discuss strategies and workflows to analyse metagenomics datasets
jdmagasin/nifH-ASV-workflow
Workflow stages and data for Morando, Magasin et al. 2024
jdmagasin/nifH_amplicons_DADA2
DADA2 pipeline for nitrogenase (nifH) amplicon sequences (Illumina paired-end)
jjcolgan/Bodke-Script
Modified dada2 script, used for master's thesis project. Takes fast2 files and outputs ASV table, taxonomy table, phylogenetic tree, and input files for PICRUSt2
NineFR09/Frontiers-10.3389-fmicb.2023.12-Growth-enhancing-effect-of-Actinocyclus-diatom-associated-bacteria
This repositorey contain the dada2 pipeline used to process the illumina sequence reads in the manuscript "Temporal variability in the growth-enhancing effects of different bacteria within the microbiome of the diatom Actinocyclus sp." (DOI: 10.3389/fmicb.2023.1230349)
ryanc16/dada2-batched-pipeline
Reconstructing a dada2 pipeline with batch processing using an OOP design
SevanEsaian/16S-Preparation-and-Analysis-Workflow
The purpose of this repository is to store R scripts that were used for 16S community compositional analyses.
YingtongAamandaWu/MonkeyFlower_ampliconSeq_DNA_data_codes
This is repository of amplicon sequencing data and bioinformatics pipeline codes for the nectar microbiome of Monkey Flowers.
zhulabgroup/qin-2021-ecosphere
neonMicrobe: Processing NEON soil microbe marker gene sequence data into ASV tables, duplicated from https://github.com/claraqin/neonMicrobe
icoia/microbiome_bioinformatics_analysis_2025
Metabarcoding and 16S rRNA Gene Sequencing (BIOF-Mic101)
LaurenQ2/Microbiome-Analysis-in-QIIME2
Microbiome analysis pipeline with reference tutorial. This code was written in October 2024 to process rRNA marker gene data (16S and ITS) from rhizosphere soil samples.
lexscience/Deep-oxygen-depleted-depressions-in-a-Red-Sea-coral-reef-sustain-resistant-ecosystems
Code and repository links for Klein & Frühe et al. 2024