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Depositing RNAseq data to GEO Page This page will walk you through the steps to make your data publicly available so you can meet the requirements for manuscript submission and publication
RStudio Server Page How to access RStudio through your web browser
Metagenomics in the cloud Page This 4 hour workshop takes users through setting up their own cloud computer, intalling a Snakemake-based pipeline called Sunbeam for analysis of shotgun met...
Kallisto Page Kallisto is our first choice for aligning reads because it combines speed, accuracy, and ability to leverage bootstraps for modeling technical variance
CHMI linux cluster Page CHMI maintains a custom configured compute server that runs Linux Ubuntu 18.04 LTS. This machine has two 6-core Intel Xeon E5-2643v4 CPUs (12 cores total), ...
Preparing microbiome data for deposit to microbiomeDB.org Page Instructions on how to prepare your raw sequence data and metadata mapping file for submission to microbiomeDB.org
analysis of 16S rRNA gene sequencing data Page Preparation of V4 region, 16S dual-indexed libraries for sequencing on an Illumina platform
QIIME2 workflow Page Using the Quantitative Insights Into Microbial Ecology (QIIME2) software pipeline for analysis of marker gene-based microbiome sequencing data
Bioinformatics Software Page A summary of the bioinformatics software currently installed on our Linux cluster.