Monthly Archives: July 2015

2015 Society for Developmental Biology

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I want to thank the Society for Developmental Biology for inviting me to their annual meeting in Snowbird, Utah. I had the opportunity to give a talk on the work that April Estrada and I have done on the role of SR45a in alternative splicing in stress response. I also led a workshop on using Integrated Genome Browser to visually analyze high-throughput sequence data. We had a great turnout, as many of the attendees were very interested in using IGB in their work.

IGB

SDB attendees finding out more about IGB.

Snowbird is a ski resort located in the mountains near Salt Lake City. I was able to take the tram to the top of the mountain and take some photos. It was a great location for a conference.

mountain

View from top of Snowbird, looking out over Salt Lake City.

 

How to take notes on a bioinformatics project

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Notes on data processing should follow these guidelines:
  • Each entry starts with the date in bold.
  • Each entry is a bulleted list.
  • Bullets should be clear but they do not need to be complete sentences, and people can be referred to by initials for brevity.

Include information about what was done and where to find the results, but do not clutter this document with why anything or how exactly; that information belongs elsewhere.

Information to include
  • Links (or paths) to data, reports, web resources, more detailed summaries, etc.
  • Basic description of what files are made and where to find them.
  • The line of code used to run a process
  • The fact that a process completed successfully or notes about what indicated that it did not.

Information to include elsewhere,
(put a link the in the data processing notes, don’t write it out here)

  • Rational about why the parameters used were chosen.
  • Experiment layout, background, reasoning, results, discussion.
  • Explanations about why a process did not work, and why the fix does.