GAMBLR family of packages

GAMBLR.viz is the top-most member of the GAMBLR family of packages that is designed to be used outside of GSC and for users who are not members of Morin Lab. It mostly serves the purpose of providing functions for high-level visualizations of genomic data, including simple somatic mutations, structural variations, copy number alterations, and combinations of these data.

The GAMBLR family includes:

• GAMBLR.data - collection of genomic data for analysis of Mature B-cell neoplasms
• GAMBLR.helpers - a set of low-level functions for data operation
• GAMBLR.utils - higher level set of functions to operate on genomic data
• GAMBLR.viz - this package
• GAMBLR.results - used to access the full data in GAMBL project. Only available for members of the Morin Lab and requires access to GSC, but can also be run locally once properly configured and synced.

This diagram illustrates in a simplified way the dependency relationship of different packages in the GAMBLR.family:

flowchart LR
  A("GAMBLR.data") --> B("GAMBLR.helpers")
  B --> C("GAMBLR.utils")
  C --> D("GAMBLR.viz")
  D --> E{"Morin Lab member?"}
  E -- YES --> F("GAMBLR.results")
  E -- NO --> A

All dependencies should be installed automatically for you, just like with any other R package. If not, please report the issue in the appropriate GitHub repo.