Writeup of common tools, methods, protocols

Here are a number of common and not-so-common operations/protocols used in the Sonnenburg Lab.

Sherlock Setup

Installation of QIIME and dependencies, setting up QIIME environment and running QIIME

Downloading Datasets

Batch Downloading from SRA
Batch Downloading from NCBI NR

Visualizations

Heatmaps

Protocols

16S rRNA Community Composition Library Preparation Pipeline

Tips for MoBio PowerSoil High Throughput 96 Well Soil DNA Isolation Kit

Metabolomics

Fecal sample preparation

Media

Salyer's Media
BHI-BA

Analyses

CAZyme Categorization