Join us in Todos Santos!
Please join us for our computational biology workshop at the CSU Center in Todos Santos, Mexico. Here is a summary of the topics that we are looking forward to covering over the course of the week.
Computational Workshop
Monday May 9: Introduction to high-throughput sequencing, computational biology, and code management
- 09:00-09:30 Arrival and Check-In
- 09:30-10:30 Introduction to Todos Santos and Group Discussion [slides]
- 10:30-12:00 High-Throughput Sequencing Technologies [slides]
- 12:00-13:00 Lunch
- 13:00-14:30 UNIX and Command Line Tools (part I) [slides]
- 14:30-16:00 UNIX and Command Line Tools (part II) [UNIX commands sheet]
- 16:00-17:00 Workflow Manangement (Snakemake) [slides]
Tuesday May 10: RNA-seq
- 08:00-08:45 Breakfast
- 09:00-12:00 RNA-seq Data Analysis I [slides]
- 12:00-13:00 Lunch
- 13:00-17:00 RNA-seq Data Analysis II
Wednesday May 11: Genomic analysis tools
- 08:00-08:45 Breakfast
- 09:00-10:00 Introduction to Genomic Analysis [slides]
- 10:00-12:00 Manipulating and Obtaining Genomics Data [slides]
- 12:00-13:00 Lunch
- 13:00-14:30 Alignment and Read Mapping [slides]
- 14:30-16:00 Assembly and Annotation [slides]
- 16:00-17:00 Variant Calling
- 18:00-20:00 Workshop Dinner
Thursday May 12: Data Visualization
- 08:00-08:45 Breakfast
- 09:00-10:00 Code Management (GitHub)
- 10:00-10:30 Introduction to R, R Markdown, and Data Visualization [slides]
- 10:30-12:00 Plotting Genomic Data with R and ggplot
- 12:00-13:00 Lunch
- 13:00-14:00 Figure Drawing in R
- 14:00-15:00 Circular Representations of Genomic Data with Circos
- 15:00-16:00 Local BLAST and Comparative Genomics [slides]
- 16:00 End of workshop
Supported by the the National Science Foundation and Colorado State University