| Tutorial | Last Updated | Description |
| Compute Cluster | ||
| Xanadu Cluster (SLURM) | June 2019 | Understanding the UConn Health Cluster (Xanadu) |
| Array Job Submission | April 2019 | Instructions to submit array Job on Xanadu |
| UNIX and R | ||
| Unix Basics | November 2016 | Introduction to Command Line Operations |
| VIM | December 2016 | Introduction to VIM UNIX Editor |
| Unix Examples | November 2016 | Basic Bioinformatic Exercises |
| Introduction to R | November 2016 | Basic Analysis and Plots |
| Package Installation in Home Directory | ||
| Python and R packages | November 2017 | Install Python and R packages in User’s Home Directory |
| File Formats | ||
| Common File Formats in Bioinformatics | May 2017 | Bioinformatics File Formats Explained |
| Data Transfer | ||
| Data Download from Basespace (Illumina) | July 2017 | Basespace data download tutorial |
| Data Transfer Using GLOBUS | August 2018 | GLOBUS file transfer instructions |
| Data Transfer Outline | March 2018 | Data Transfer |
| RNA-Seq Guides | ||
| Prokaryote RNA-Seq (EDGE-pro/DESeq2) | June 2019 | EDGE-pro tutorial (with Listeria reference genome) |
| Model Plant RNA-Seq (HISAT2/StringTie/Ballgown) | May 2019 | RNASeq tutorial (with Arabidopsis thaliana transcriptome) |
| Model Marine RNA-Seq (HISAT2/DESeq2/EnTAP) | December 2018 | RNASeq tutorial (with Larimichthys crocea reference genome) |
| Non-Model Plant RNA-Seq (Sickle/Trinity/Transdecoder/Kallisto/GFOLD/EnTAP) | May 2019 | RNA-Seq tutorial (with Eastern larch de novo transcriptome) |
| Web-based RNA-seq on Model Species (Galaxy) | July 2017 | Galaxy RNASeq tutorial (with Drosophila melanogaster reference genome) |
| Single-Cell RNA-Seq analysis (10X genomics) | July 2017 | Single-Cell RNA-Seq analysis (10X genomics, CellRanger) |
| Structural Annotation | ||
| Structural Annotation for model Organism (Sickle/HISAT2/BRAKER/Entap) | December 2018 | Structural Annotation for Assembled Genomes |
| Genome Assembly | ||
| Genome Size Estimation Tutorial | May 2017 | Genome Size Estimation Tutorial |
| Bacterial Genome Assembly Tutorial | May 2019 | Genome Assembly tutorial |
| Variant Detection | ||
| Variant Detection Exome Capture | Aug 2019 | Variant Calling with Samtools (Basics) |
| Variant Detection WGS | Aug 2019 | Variant Calling with freebayes |
| Variant Detection Exome Capture | May 2019 | Variant Calling with GATK |
| Analysis Packages | ||
| Geneious | May 2017 | Geneious access and login information (PDF) |
| Geneious: Loading data from the home directory | May 2018 | Mapping the Home Directory to VM Desktop (pdf) |
| PacBio | May 2019 | PacBio SMRT Portal |