CCBB’s Bioinformatic framework for Scripps Research community!

CCBB is empowering you with tools for self-directed data analysis

Please follow the instructions and get access to our analysis pipelines:

Step1

As you will access our pipelines on Garibaldi, please get your account on Garibaldi by emailing HPC (if you do not have one already).

Step2

Setting up Workflow, an interface to access CCBB pipelines on Garibaldi:
Please follow the instructions to setup workflow on your computer.
Please note that workflow needs to be set-up only once.

Step3

Pick the pipeline you like to use and sign-up (just once per pipeline) at CCBB website.
Email CCBB to find out if you have signed up already!

CCBB Pipelines on Garibaldi

• Bulk RNAseq analysis user guide
• Differential Abundance analysis user guide (prerequisite: run Bulk RNAseq analysis)
• 10x single cell gene expression (standard) analysis user guide

Step4

Consult CCBB for any downstream custom work including generating figures for publication, comprehensive functional analysis (with our licensed product Advaita’s iPathwayGuide), submitting data to public repositories etc.

Step5

Please review our authorship guidelines and consider giving authorship to CCBB personnel contributing to your research work. Include the following in the Acknowledgements section of your manuscript and recognize specific CCBB personnel who helped in your project(s): “The authors acknowledge the support of the Center for Computational Biology and Bioinformatics (CCBB) at Scripps Research”.
Co-authorship and acknowledgment demonstrate the utilization of our Bioinformatics Core services and is an indication of its value to your research.

DISCLAIMER

CCBB is providing pipelines on Garibaldi, the institute’s shared Linux cluster, on “as is” and “as available” terms, solely for the benefit of the scientific community at Scripps Research. CCBB reserves the right to continue/discontinue any of its pipelines on Garibaldi.