16s-seq

Materials and presentation for the 2022 ISB Microbiome course.

Materials and presentation for the 2023 ISB Microbiome course.

A Qiime plugin for MICOM.

MicrobiomeStat Tutorial Repository: This is a comprehensive resource for learning how to use the MicrobiomeStat package. It provides a step-by-step guide to effectively analyze complex microbiome data.

Quantitative metagenomic alignment and taxonomic exact-matching

A quick and user-friendly pipeline to go from raw fastq data from Illumina (paired-end sequencing) to processed ASVs and Taxonomic data.

A tool to identify and extract the commonly used ITS folding motifs from a 16s-23s rRNA sequence.

16S SNAPP on Python 3 - version 2

VSEARCH pipeline for ASV inference of 16S seq data

LotuS version 3

This repository contains my first analysis workflow using Qiita and Qiime 2. It processes and analyses 16s rRNA data from my raw reads for diversity analysis and taxonomy

SPIEC-EASI Network Modeling of Bacterial Communities (TwinsUK).

Analysis of cyanobacteria 16S eDNA sequences obtained from stormwater management ponds using QIIME 2 and R.

Repository containing various RNA-seq, ChIP-seq, and 16S-seq analysis pipelines run through R

Code associated with the following manuscript, currently in review: M.S. Fischer, N.J. Patel, P.J. De Lorimier, M.F. Traxler "Prescribed fire selects for a pyrophilous soil subcommunity in a northern California mixed conifer forest"

A R script for the study of the prokaryotic community of the sponge Dactylospongia metachromia

Workflow of community composition and diversity analyses of bacteria and archaea with QIIME 2

AU microbiome molecular exploratory analyses for NSW