Introduction to Bring Your Own Bioinformatics

1. Many people working along the spectrum from Biology to Computer Science.
2. There are some good meetings for people working in these areas (e.g. CBMG and CBCB RIPs).
3. However, some people's work may not fit nicely into either of these.
4. RIPs/JCs are typically focused on research and not on the tools used along the way.
5. Also, few socially-oriented meetings directed at people across this spectrum currently exist.

1. Bring people with shared interests across the spectrum together to share ideas, help each other out and also to learn what each other is doing.
2. Short, practical tutorials and presentations for the 1st half of meeting.
3. Discussion and socializing in 2nd half of meeting.
4. Have fun.

• Anyone who is either working on or interested in topics that fall along this spectrum: students, faculty, post-docs, technicians, etc
• Both those with experience and those who are interested.

Presentations will typically be short (15-45 minutes) and may fall into a couple different categories:

1. Low-level, focused tutorial on how to perform some particular task.
2. High-level, broad tutorial describing some interesting tool or technology and how it might be used.

Of course, not all presentations will fall into these categories, and that's okay too.

BYOB will include a very wide range of topics:

• Bioinformatics
• Computational Biology
• Data analysis
• Programming
• Statistics
• Visualization
• Software Engineering
• Open Science and Reproducible Research

• Visualization in R using ggplot2
• Batch correction for RNA-Seq (ComBat, etc)
• Network visualization with Cytoscape
• Working with IGV
• Working effectively on clusters (PBS, etc)
• Setting up a good Bash profile
• Tree visualization using Python + ETE
• An introduction to unit testing
• Annotating genomes using HMMER, Pfam, and GO

• Debugging Python code using IPyhon + PDB
• Making presentations using Slidify
• Collaboration using Git and Github
• Running Linux as a virtual machine
• An introduction to clustering in R
• Finding motifs using Biopython
• Working remotely using VNC
• Journal club / algorithm break-down

All of the materials from presentations given at BYOB will be made available on Github:

A UMD-BYOB Google Group has been created to make announcements about upcoming presentations.

A full schedule will also be made available at http://umd-byob.github.io/.