| Tutorial | Description | |
| Compute Cluster | ||
| Xanadu Cluster (SLURM) | Understanding the UConn Health Cluster (Xanadu) | |
| Array Job Submission | Instructions to submit array Job on Xanadu | |
| Resources Allocation in SLURM | Requesting resource allocation | |
| UNIX and R | ||
| Unix Basics | Introduction to Command Line Operations | |
| VIM | Introduction to VIM UNIX Editor | |
| Unix Examples | Basic Bioinformatic Exercises | |
| Introduction to R | Basic Analysis and Plots | |
| Package Installation in Home Directory | ||
| Python and R packages | Install Python and R packages in User’s Home Directory | |
| File Formats | ||
| Common File Formats in Bioinformatics | Bioinformatics File Formats Explained | |
| Data Transfer | ||
| Data Download from Basespace (Illumina) | Basespace data download tutorial | |
| Data Transfer Using GLOBUS | GLOBUS file transfer instructions | |
| Data Transfer Outline | Data Transfer | |
| RNA-Seq Guides | ||
| Prokaryote RNA-Seq (EDGE-pro/DESeq2) | EDGE-pro tutorial (with Listeria reference genome) | |
| Model Plant RNA-Seq (HISAT2/StringTie/Ballgown) | RNASeq tutorial (with Arabidopsis thaliana transcriptome) | |
| Model Marine RNA-Seq (HISAT2/DESeq2/EnTAP) | RNASeq tutorial (with Larimichthys crocea reference genome) | |
| Non-Model Plant RNA-Seq (Trimmommatic/Trinity/Transdecoder/Kallisto/GFOLD/NOISeq/EnTAP) | RNA-Seq tutorial (with Eastern larch de novo transcriptome) | |
| Single-Cell RNA-Seq analysis (10X genomics) | Single-Cell RNA-Seq analysis (10X genomics, CellRanger) | |
| Structural Annotation | ||
| Structural Annotation for model Organism (Sickle/HISAT2/BRAKER/Entap) | Structural Annotation for Assembled Genomes | |
| Genome Assembly | ||
| Genome Size Estimation Tutorial | Genome Size Estimation Tutorial | |
| Genome Assembly Tutorial | Genome Assembly tutorial | |
| Variant Detection | ||
| Variant Calling | Variant Calling | |
| RADseq Analysis | RADseq Analysis | |
| Analysis Packages | ||
| Geneious | Geneious local install and login information | |
| PacBio | PacBio SMRT Portal | |