Track, Analyze, Visualize: Unravel Your Microbiome's Temporal Pattern with MicrobiomeStat

The importance of converting relative to absolute abundance in the context of microbial ecology: Introducing the user-friendly DspikeIn R package

"猛犸杯"-宏基因组分析流程

Some of the analytical processes and tools we use to provide rigorous and actionable results to our clients.

Scripts for analysis of metatranscriptomic and 16S rRNA amplicon data from wild oysters in Narragansett Bay

Welcome to 'Metagenomics in R for Dummies'! Are you interested in learning the essentials of metagenomics in a short period of time? You've reached the right repos!

This repository contains code for pre-processing and analysis of 16S rRNA data used to generate results in the paper "Skin bacterial community dynamics of hands and forearms before and after military field exercise".

Microbial community dynamics during key life-history transitions in the chemosymbiotic mussel, Gigantidas childressi

Code and raw data for *Galaxea fascicularis* microbiome data analysis

This was created and refined during my PhD as the part of the scientific project. Codes are highly customizable. Watch out - Each code does a heatmap for absolutely different thing.

An analysis of cortisol levels and gut microbiome composition in primates (Gorilla) housed in U.S. zoos using the BugSeq-er pipeline.

This repository is a place for codes I have used during my PhD for microbiome analysis of spider egg sacs. Two species were analysed: Parasteatoda tepidariorum and Pardosa lugubris. Three egg sac's conditions: environment + silk + eggs. This code was created in this 'simple adaptation' vibes, so I can tweak it here and there for the future studies.

This script I have created for my last PhD-related paper, as I needed to better understand the microbiome of cocoon's environment, cocoon's silk and cocoon's eggs. It also introduces more refined metagenomic data filtering.

16S rRNA sequencing data analysis of mice fed with pectin-based prebiotic fiber using both QIIME2 and R.

agp data to understand gut microbiome and childhood obesity.

Scripts for combined 16S analysis and Rscripts to make figures for conclusions chapter of dissertation

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

QIIME 2 による 16S rRNA アンプリコン解析を学ぶための包括的日本語マニュアル — 各手法のメリット・デメリットを解説