Materials and presentation for the 2022 ISB Microbiome course.

• UpdatedJun 13, 2024
• Jupyter Notebook

Materials and presentation for the 2023 ISB Microbiome course.

• UpdatedSep 25, 2024
• Jupyter Notebook

A Qiime plugin for MICOM.

• UpdatedMar 4, 2025
• Python

Quantitative metagenomic alignment and taxonomic exact-matching

• UpdatedMar 16, 2025
• Shell

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.

• UpdatedDec 25, 2024

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

• UpdatedJan 12, 2023
• Python

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

• UpdatedJun 3, 2024
• R

Python script designed to streamline bioinformatics analysis and facilitate data extraction from EZBioCloud

• UpdatedMar 16, 2024
• Python

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

• UpdatedJul 6, 2021
• R

AU microbiome molecular exploratory analyses for NSW

• UpdatedJul 14, 2022
• R

VSEARCH pipeline for ASV inference of 16S seq data

• UpdatedJul 21, 2024
• Nextflow

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"

• UpdatedFeb 22, 2023
• R

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

• UpdatedJan 29, 2023
• R

16S SNAPP on Python 3 - version 2

• UpdatedMar 11, 2025
• Python