From Rous
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We are grateful to Microsoft Corporation and Microsoft Research for their generous support of our educational activities.
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Location
Schedule
Day 1 – January 23, 2012, 11 AM - 1 PM
Introduction, Getting more from Excel and Unix Introduction
Day 2 – January 25, 2012, 11 AM - 1 PM
Next Generation Sequence Analysis with UNIX and Galaxy
- Next Generation Sequence (NGS) Analysis with UNIX
- Next Generation Sequence (NGS) Analysis PSU Galaxy
Day 3 – January 27, 2012, 11 AM - 1 PM
Visualization and Analysis of Genomics Data
- Integrated Genomics Viewer - IGV
- IGV General Introduction
- Viewing BAM files with IGV
- Accessing Public Data with IGV
- Viewing Your Own Data with IGV
- UCSC Genome Informatics Tools
- UCSC Genome Bioinformatics General Introduction
- Interacting_with_the_UCSC_Genome_Browser
- Obtaining_DNA_sequence_from_the_UCSC_Database
- Obtaining genomic data from the UCSC database using table browser queries
- Filtering table browser queries
- Performing a blat search
- Creating Custom Tracks
- UCSC Intersection Queries
- More Table Browser Queries
Reserve/Unscheduled material
- Unix Access_rights
- Functional Annotation - Gather, GO tree machine, Biobase BKL
- Protein Analysis Introductory Presentation
- Multiple sequence alignment with clustalw2
- Phylogenetic analysis with Phylip
- Uniprot demonstration
- Introduction to Relational Databases and MySQL
- MySQL SQL statements
- MySQL table creation, data loading
- MySQL - more complex queries
- Statistics with R
- Microarrays and R/Bioconductor
Instructors
Paola Favaretto
Sebastian Hoersch
Courtney Crummett
Charlie Whittaker
Course Materials
