Basic Operations | Connection to the cBioPortal Server | Cancer Study IDs | Genetic Profiles (Assays) and Case Lists | Retrieve Genomic Data | Retrieve Data for all available genes | Examples and visualizations | Relationship between E2F1 and EZH2 in BRCA | E2F1 Expression vs. Binned EZH2 Expression in BRCA | Relationship between HMGA1 and TP53 with respect to TP53 mutation status in BRCA | SessionInfo

Install | Example 1: using the USArrests dataset | Example 2: use the "ward.D2" algorithm and the UScitiesD dataset | Example 3: use gene expression data | SessionInfo

Notes | New features of easyPubMed version r this_epm_ver | Installation | Stable Version | Dev Version(s) | Tutorial | Overview | Advanced Operations | Non-standard PubMed Queries | Retrieve non-XML Records | Queries Returning Large Numbers of Records | Save Raw Records Locally | Alternative Approaches for Record Parsing | Software Maintenance and Life Cycle | Additional Information | More info, other examples and vignettes, and Advanced Guides | References | Feedback, Citations and Collaborations | SessionInfo

Tutorials and How-tos | Installation | Note on software Dependencies | Pipeline | Alternative pipeline | Load library, set-up environment | Example 1 - De novo extraction of Mutational Signatures from BLCA samples | Data Import and pre-processing | Signature Extraction | Downstream analyses and visualization | Example 2 - Estimate the contribution of a panel of known mutational signatures | Estimate Exposures to known Mutational Signatures | Downstream analysis | More info and examples | SessionInfo