Amplicon sequence processing workflow using QIIME 2 and Snakemake
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Updated
May 16, 2024 - Python
Amplicon sequence processing workflow using QIIME 2 and Snakemake
16S rDNA V3-V4 amplicon sequencing analysis using dada2, phyloseq, LEfSe, picrust2 and other tools. Demo: https://ycl6.github.io/16S-Demo/
Microbiome Analysis Using R Workshop originally organized for the 2018 ASM General Meeting in Atlanta, GA, but regularly updated since.
Track, Analyze, Visualize: Unravel Your Microbiome's Temporal Pattern with MicrobiomeStat
Dadaist2 🟨 Highway to R
Collection of notebooks describing the basic analysis workflow for a 16S rRNA gene amplicon sequencing project
Processing NEON soil microbe marker gene sequence data into ASV tables.
A pipeline to analyse marine fish amplicon data
Working Demo on 16S rDNA V3-V4 amplicon sequencing analysis using dada2, phyloseq, LEfSe, picrust2 and other tools. Visit repo website for HTML output
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.
🌊 16S rRNA microbiome data analysis workflow using DADA2 and R on a high performance cluster using SLURM
A quick and user-friendly pipeline to go from raw fastq data from Illumina (paired-end sequencing) to processed ASVs and Taxonomic data.
Bioinformatic data analysis scripts and pipelines
A workflow for processing CCS reads of AMF to ASVs using DADA2
Accurate sample inference from amplicon data with single nucleotide resolution
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)
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