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Print results of the iC10 classifier
● Data Source:
CranContrib
● Keywords:
● Alias: print.iC10
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This function should not be called directly
● Data Source:
CranContrib
● Keywords:
● Alias: getCNfeatures
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Plot results of the iC10 classifier, in two different formats: either the signatures of the training set or the signatures of the new data classified.
● Data Source:
CranContrib
● Keywords:
● Alias: plot.iC10
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Goodness of fit results of the iC10 classifier: this function computes correlations between the signatures of the training dataset and the classified features.
● Data Source:
CranContrib
● Keywords:
● Alias: goodnessOfFit, goodnessOfFit.iC10
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Normalization of expression features. Several methods available in the package CONOR can be used.
● Data Source:
CranContrib
● Keywords:
● Alias: normalizeFeatures
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Summary results of the iC10 classifier: shows the distribution of samples classified into each iC10 group and a summary of the maximum posterior probablity for each sample. Small values pinpoint samples with no clear group assigned.
● Data Source:
CranContrib
● Keywords:
● Alias: summary.iC10
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This function plots the centroids of the training set versus the average profiles of the new data classified in each group.
● Data Source:
CranContrib
● Keywords: ~kwd1, ~kwd2
● Alias: compare, compare.iC10
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iC10 implements 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.
● Data Source:
CranContrib
● Keywords:
● Alias: iC10-package
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iC10
(Package: iC10) :
A copy number and expression-based classfier for breast cancers
iC10 implements 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.
● Data Source:
CranContrib
● Keywords:
● Alias: iC10
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This function matches available copy number and/or expression data features to the training signatures; using either genomic position or HUGO gene name for copy number features and either Illumina probe names or HUGO gene name for expression features.
● Data Source:
CranContrib
● Keywords:
● Alias: matchFeatures
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providing 
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