BMMB 554 L8

Transcript

1. L8: Galaxy BMMB 554
2. Register account(s) on Galaxy • First choice Galaxy instance: https://usegalaxy.eu • Backup plan: https://usegalaxy.org
3. Galaxy: Web-based analysis platform • Integration of various computational tools and databases. • Web-based service • Completely self-contained application • Penn State project! • Anton Nekrutenko’s group
4. Galaxy: One-stop shop for Genome Analysis • Analyze • Retrieve data directly from popular data resources or upload your own • Interactively manipulate genomic data with “best-practices” toolset • Visualize • Send data results to external Genome Browsers • Publish and Share • Results and step-by-step analysis records (Data Libraries and Histories) • Customizable pipelines (Workflows) • Reproducible Research
5. Galaxy’s Analysis Interface
6. Getting Data • Upload files from your computer • Import files from websites URL • Import files through FTP server • Import data from external browsers • Import datasets from Data Libraries
7. Upload Data
8. Galaxy- UCSC Genome Browser Bridge
9. Galaxy ToolBox
10. Histories
11. Workflows
12. Galaxy ToolShed
13. Summary • Galaxy is a useful platform for bioinformatics analyses. • Intro tutorial: http://usegalaxy.org/galaxy101 • Use cases: https://galaxyproject.org/learn