MDI Biological Laboratory
Bioinformatics

Workflows in the Cloud 2024

This is a one-day workshop focusing on nf-core/rnaseq, workflow standardization, computing access and cloud infrastructure.

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Application Deadline: 04/05/2024

Overview

This course aims to introduce the knowledge, resources, and methods necessary to run high-performance bioinformatics workflows at the level of the individual researcher; be they scientific faculty, educators, or motivated students.

Our target audience is anyone interested in cost-effective usage of commercial cloud computing infrastructure. However, the skills and approaches that we will cover are also applicable to on-premise computing clusters.

Course Directors

James Coffman, Ph.D.

MDI Biological Laboratory

Joel Graber, Ph.D.

MDI Biological Laboratory

Course Faculty

Patrick Guha

Amazon Web Services

Sateesh Peri

MemVerge

Workshop Schedule

0900 – Welcome and Introduction

0915 – Overview/Agenda

0930 – Workflow/Pipelines

1015 – Amazon Web Services

1100 – Memverge/Nextflow

1200 – NF-Core RNAseq Pipeline Setup & Launch

1300 – Lunch

1400 – Questions/Issues/Discussion

1430 – Pipeline Outputs Exploration

1530 – Discussion of Various Individual Use Cases

1630 – Resources for Further Interest/Deeper Detail

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