resources.md

layout	title	subtitle
page	Resources	Below are some helpful resources.

UAB Resources

There are resources developed by or provided by UAB scientists, labs, and groups.

Tutorials and Guides by UAB Scientists & Groups

• nf-core tips by Dr. Lara Ianov of U-BDS
• Intro to Docker for RStudio by Dr. Lara Ianov of U-BDS
• Lasseinge Lab Training Guides by the Lasseigne Lab
• UAB's Research Computing Documentation by UAB Research Computing
• CCTS Informatics Resources by CCTS

High Performance Computing

Cheaha

Cheaha is a High Performance Computing (HPC) resource intended primarily for batch processing of research computing software. We offer a user-friendly portal website Open OnDemand with graphical interfaces to the most common features, all in one place.

Learn more at https://docs.rc.uab.edu/cheaha/getting_started/.

Office Hours

• U-BDS offers weekly data science office hours on Thursdays from 1:30pm-2:00pm.

  • If you are a UAB trainee, staff or faculty please feel free to stop by via zoom.

• Code, Chat, & Collab is hosted weekly on Fridays by the Informatics Club in BBRB 258 at Noon.

• UAB's Research Computing Office Hours

  • Mondays 10:00 AM to 12:00 PM: Zoom
  • Thursdays 10:00 AM to 12:00 PM: Zoom

• CCTS Biostatistics, Epidemiology & Research Design (BERD) Consultations

  • One-on-One Biostatistics Design Consultation via BERD Clinics and individual appointments (in-person or virtually).
    • Make an appointment: https://redcap.dom.uab.edu/surveys/?s=H7W9EXT38THY7ER9
  • In-person consultations take place in the Shelby Biomedical Research Building (1st floor) on Wednesdays 11:30 am - 1 pm and Fridays 8:30 am - 11:30 am

Community Channels

• Join the UAB Labs Slack and search for the #datascience channel and #informatics-club channel
  • These are great places to ask questions and stay updated on opportunities.

Courses, Workshops, and Events

U-BDS offers bi to tri-annual workshops which cover the fundamentals of programming (R, Python, Unix, git).

External Resources

The Carpentries

The Carpentries is a 501(c)3 non-profit organization dedicated to educating researchers on software and data skills. Using inclusive and accessibly best practices, they build, maintaint and promote high-quality instructional material for a range of software and data-oriented concepts.

• Software Carpentries Lessons: Primary page for the Software Carpentry lessons. The following lessons, and more, are available.
  • The Unix Shell
  • Version Control with Git
  • Programming with Python
  • Programming with R
• Data Carpentries Lessons: Primary page for the Data Carpentry lessons. Instructional material is available for a variety of fields.
  • Genomics Curriculum
  • Image Processing Curriculum

Courses, Tutorials, and Workshops

• EMBL-EBI Training: EMBL-EBI offers a variety of online and in person training resources, including webinars, tutorials, and courses.

Recommended Reading

• Ten simple rules for using public biological data for your research by Oza, V. H., Whitlock, J. H., Wilk, E. J., Uno-Antonison, A., Wilk, B., Gajapathy, M., Howton, T. C., Trull, A., Ianov, L., Worthey, E. A., & Lasseigne, B. N. (2023)
• So you want to be a computational biologist?
• Best Practices for Scientific Computing
• Good Enough Practices in Scientific Computing
• Ten simple rules for biologists learning to program
• Ten Simple Rules for Reproducible Computational Research