Software / Programming

MyResearch@UCSF

A professionally managed, secure, web based, collaborative environment in which to store files containing sensitive data.

  • Investigators view, manipulate, and save their data entirely in a protected environment without storing files on their own computers
  • Includes research software applications, such as SAS, Stata, SPSS, R, TreeAge, Atlas.ti, MS Office, and Matlab free of charge
  • Offers collaborative tools, such as SharePoint and the UC ReX Data Explorer, to facilitate the conduct of multi-site research studies
Access: 
Free for UCSF community
Academic Research Systems (ARS)
ARS Support
its-arssupport@ucsf.edu

Table 1 SAS Macro

The Table 1 SAS macro summarizes continuous and categorical variables by subgroups, and generates:

  • A summary table that is useful for a simple analysis/first look at a data set.
  • A final demographic descriptive table that may be used in the typical Table 1 of a clinical paper.
Access: 

Download and run macro on your data; request consultation for help or additional analyses

Free for UCSF community
Clinical & Translational Science Institute (CTSI)
Consultation Services
ctsi.consulting@ucsf.edu

Library Bioinformatics Support

Bioinformatics provides researchers with efficient computer-based tools and methods for storing, retrieving and interpreting the vast quantities of data being generated by research.

  • Get access to and training on various biomedical data and software tools
  • Learn methods for analyzing biomedical data
Access: 

Email contact or check the calendar for upcoming workshops and hands-on training

See website
UCSF Library
Megan Laurance
megan.laurance@ucsf.edu

Resource for Biocomputing, Visualization, and Informatics (RBVI)

Develops cutting-edge interactive software tools and advanced web-based computational resources that provide integrated visualizations and analyses of molecular structures and related non-structural biological information.

  • Development of interactive computer graphics techniques
  • Provides Chimera package for molecular visualization and analysis
  • Structure-Function Linkage Database
  • High-performance computational infrastructure
Access: 
Request information
Contact staff
http://www.cgl.ucsf.edu/Overview/staff.html

Gladstone Bioinformatics Core

Services span experimental design, statistics, omics analysis and systems biology.

  • Biostatistical analysis
  • Sequence and downstream analysis
  • Data integration, pathway and network analysis and visualization
  • Software development
  • Year-round training opportunities
Access: 

Request services via iLab account or consultation request

Hourly Recharge
Gladstone Institutes
Contact
bioinformatics@gladstone.ucsf.edu

Computational Biology Core (CBC)

Expertise in genetics, bioinformatics, computer science and statistics with long-term experience in high-throughput sequencing, microarrays, and other genomic and proteomic technologies.

  • Scientific and study design consultation
  • Data analysis
  • Software development
  • High performance computing
  • Grant and manuscript assistance
Access: 

Prioritized toward members of the UCSF Helen Diller Family Comprehensive Cancer Center, but support available to outside investigators as time permits. Contact by email or phone

Hourly Recharge, first hour free per project
Cancer Center