A Copy Number and Expression-Based Classifier for Breast Tumours

Implementation of the classifier described in the paper 'Genome-driven integrated classification of breast cancer validated in over 7,500 samples' (Ali HR et al., Genome Biology 2014). It uses copy number and/or expression form breast cancer data, trains a pamr classifier (Tibshirani et al.) with the features available and predicts the iC10 group.


News

iC10 1.5

  • Changed dependency from pam.knn.impute to impute iC10 1.4.0
  • Fixed bugs with matchFeatures and plot
  • Added more gene synonyms (thanks to Jose Costa) iC10 1.1.3
  • Fixed bug in iC10 when only copy number is present and there are missing values iC10 1.1.2
  • Fixed bug in compare iC10 1.1.1
  • Removed dependency to CONOR as it is not longer maintained.
  • variable name chrom changed to chromsome_name in getCNFeatures to be consistent with documentation
  • Acknowledge beadarray 2.14.1
  • Genome Biology Paper reference added. iC10 1.0.2
  • The package depends on iC10TrainData (instead of importing it)

Reference manual

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install.packages("iC10")

1.5 by Oscar M. Rueda, a year ago


Browse source code at https://github.com/cran/iC10


Authors: Oscar M Rueda


Documentation:   PDF Manual  


GPL-3 license


Depends on pamr, impute, iC10TrainingData


See at CRAN