Public projects overview

The Seven Bridges Platform maintains public projects which act as repositories for examples of specific analyses as well as the associated data and tools you need to replicate these analyses on the Platform.

To preserve the integrity of the public projects' resources, you only have read permissions for these projects. You can browse through a public project to review the available data, workflows, and tools. To conduct further analyses, you can also make a copy of the entire project or copy specific resources from the public project into your personal projects. At this point, the copied project becomes your own project: you will have full project admin permissions and control over the project. Your actions in your own project will not affect the public project from which you obtained the resources.

Public projects on the Platform include:

• Smart Variant Filtering - Smart Variant Filtering (SVF) uses machine learning algorithms trained on features from the existing Genome In A Bottle (GIAB) variant-called samples (HG001-HG005) to perform variant filtering (classification).
• VCF Benchmarking project: This project contains the resources required to benchmark a set of variant calls.
• Cancer Cell Line Encyclopedia (CCLE) project: This project contains data from the Cancer Cell Line Encyclopedia dataset which you can use on the Platform.
• Simons Genome Diversity Project (SGDP) dataset: This project contains data from the Simons Genome Diversity Project dataset which you can use on the CGC.
• Data Cruncher Interactive Analyses: This project contains interactive analyses that can be executed in Data Cruncher, and are additional resources that help users mitigate some of the challenges related to interpretation of data obtained as a result of secondary analysis.

Learn more about accessing public projects below.

Access public projects

To access public projects on the Platform:

1. Click Public projects in the top navigation bar, as shown below.

2. Choose a public project from the page that is displayed next.

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Access public projects via the API

You can also access public projects via the API by using the naming convention of {project_owner}/{project}. Locate the project's owner and name from the URL bar on the visual interface. For instance, the CCLE public project is located at https://igor.sbgenomics.com/u/sevenbridges/cancer-cell-line-encyclopedia-ccle/. You can refer to the CCLE public project in the API as sevenbridges/cancer-cell-line-encyclopedia-ccle.