The GDC provides an array of interactive, web-based Analysis Tools for performing in-depth gene- and variant- level analyses. The workflow is cohort-centric, meaning analyses are specific to a researcher's cohort of interest.
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Documentation
Data Analysis Tools
The GDC provides interactive, cohort-centric tools for analyzing genomic and clinical data.
Data Analysis Policy
Policies and guidelines for appropriate use of data, are provided by the GDC whether open- or controlled- access.
Data Harmonization and Generation
The GDC developers best-in-practice pipelines for processing the most common molecular platforms. Variant calling, gene expression analysis, and other pipelines are implemented using software and algorithms selected in consultation with experts in the genomics community.
What’s New with GDC and Cancer Research
Cancer Research Highlights and Publications:
Does the GDC provide access to germline variants?
Any germline SNP calls are not available for exploration in the GDC Data Portal. Instead, alignments for germline data are available under controlled access. Users with appropriate access may use the alignments to generate germline variants.
Some somatic variants callers, such as MuTect2, also output somatic calls with some level of germline possibilities, such as those labelled as "germline_risk". Please note that these calls are, by no means, germline variants. They are somatic calls with boundary probability of germline risks.
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