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Center for Computational Biology

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Workshops and Bootcamps

CCB Bioinformatics Bootcamp

The Center for Computational Biology offers a 5-day “Introduction to Programming for Bioinformatics” bootcamp. The goals of this course are to introduce students to Python, a simple and powerful programming language that is used for many applications, and to expose them to the practical bioinformatic utility of Python and programming in general.

The course will allow students to apply programming to the problems that they face in the lab and to leave this course with a sufficiently generalized knowledge of programming (and the confidence to read the manuals) that they will be able to apply their skills to whatever projects they happen to be working on. The course assumes no programming experience, and there are no prerequisites for the course.

The next “Introduction to Programming for Bioinformatics” bootcamp will be offered from June 13-17, 2022. Registration for the bootcamp will open in April.

Please check our FAQ page for any questions you might have.

Please email ccbadmin@berkeley.edu if you would like to be added to the bootcamp mailing list and be informed when registration is open for the next bootcamp.

The schedule below shows an approximation of what is covered in the course.

Day 1 Morning: The Very Basics: Hello, World! Variables, and Printing

Afternoon: Functions and Methods
Day 2 Morning: Control flow – conditional statements and loops

Afternoon: Data structures – Lists and Tuples
Day 3 Morning: Data structures – Dictionaries

Afternoon: Reading and Writing from Files
Day 4 Morning: Modules, Numpy, Scipy

Afternoon: Visualizing data with Matplotlib
Day 5 Morning: Pandas and Data Manipulation

Afternoon: Applications and Next Steps

Computational Biology Core Skills Seminars

The aim of the Computational Biology Core Skills seminars is to strengthen bioinformatics training on campus by providing a setting to disseminate knowledge and experience among the student community.

These peer taught seminars are organized by and for graduate students, but are open to other UC Berkeley researchers and affiliates.

Most seminars will be hybrid & meet in Stanley Hall 177. **Virtual only.
You will need to RSVP to receive a zoom link for the session.

To view the recordings of the previous Computational Biology skills seminars and tutorials, please click here.

Wednesday, Feb. 9

12 – 1 PM

Speaker: Monica Arniella (PhD student, Moorjani lab)

Topic: Introduction to R’s tidyverse for data science
Wednesday, Mar. 9

12 – 1PM

Speaker: Yun Deng (PhD student, Song lab)

Topic: Introduction to computational population genetics
Wednesday, Apr. 13

12 – 1 PM

Speaker: Valeh Valiollah Pour Amiri (Research Engineer, Yosef Lab)

Topic: Using Github Actions in collaborative development projects
Wednesday, May 11

12 – 1 PM

Speaker: Alexandre de Siqueira (Postdoc, BIDS)

Topic: Introduction to scikit-image for 3D image analysis
Depts/Centers Courses Links
Berkeley Institute For Data Science (BIDS) Machine learning, data science, statistics https://bids.berkeley.edu/events
Berkeley Research Computing (BRC) – Research IT Varies http://research-it.berkeley.edu/events
D-Lab Python, Excel, and more https://dlab.berkeley.edu/training
R, Python https://dlab.berkeley.edu/people/drew-hart
Tutorials in R https://github.com/dlab-berkeley
Department of Statistics R- Bootcamp http://statistics.berkeley.edu/computing/r-bootcamp
Berkeley Electrical Engineering and Computer Sciences Varies https://eecs.berkeley.edu/academics/courses
Simons Institute for the Theory of Computing Data analysis, deep learning, and more https://simons.berkeley.edu/workshops
Computational Genomics Resource Laboratory Next generation sequencing data analysis http://qb3.berkeley.edu/cgrl/
Carpentries Club Python, R, Shell, Git, and more https://bids.github.io/carpentries-club/who.html
Berkeley Center for Cosmological Physics Varies http://bccp.berkeley.edu/workshops/
Berkeley Nanosciences and Nanoengineering Institute Varies https://nano.berkeley.edu/news/conferences.html
UCSF Bakar Computational Health Sciences Insittute Biomedical informatics, molecular study, systems biology, systems pharmacology http://bakarinstitute.ucsf.edu/
UC Davis Bioinformatics Core Facility Data analysis https://bioinformatics.ucdavis.edu/

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Outreach

  • Overview
  • Workshops and Bootcamps
  • Seminars and Symposia
  • Annual Retreat
  • Bioinformatics Consulting

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