Welcome to IntOGen’s documentation

Contents:

• Data Collection
  • TCGA
  • PCAWG
  • cBioPortal
  • Hartwig Medical Foundation
  • ICGC
  • St. Jude
  • PedcBioPortal
  • TARGET
  • Beat AML
  • Literature
• Preprocessing
• Methods for cancer driver gene identification
  • dNdScv
  • OncodriveFML
  • OncodriveCLUSTL
  • cBaSE
  • Mutpanning
  • HotMaps3D
  • smRegions
• Combining the outputs of driver identification methods
  • Rationale
  • Weight Estimation by Voting
  • Ranking Score
  • Optimization with constraints
  • Estimation of combined p-values using weighted Stouffer Z-score
  • Tiers of driver genes from sorted list of combined rankings and p-values
  • Combination benchmark
• Drivers postprocessing
  • Classification according to annotation level from CGC
  • Mode of action of driver genes
• Repository of mutational features
  • Linear clusters
  • 3D clusters
  • Pfam Domains
  • Excess of mutations
  • Mode of action
• Installation
• Usage
• Input & output
  • Input
  • Output

Indices and tables

• Index

• Module Index

• Search Page