Description Usage Arguments Details Value Author(s) References See Also Examples
Predicts class for samples from chromosomes.
1 2 3 4 5 6 7 8 9 10 11 |
filter |
The |
subset |
Second level of filter. |
classFunc |
The function that provides the class prediction. |
classes |
The known classes if they are different than those in |
sampleNames |
Sample names if they are different than those in |
chromosomes |
Specific chromosome list. The default is use the solution from |
verbose |
Display processing information. |
use.cache |
Save/Restore values from previous computations with same parameters. |
classFunc
is called for each chromosome, therefore this routine can be time consuming depending on the behaviour of classFunc
. The default classFunc
from configBB.VarSel
computes the class by majority of votes using all splits. Use ...
for specifying splits
, set
or any other parameter for classFunc
.
A matrix whose rows are samples and columns are classes. Each value is the number of times the sample was predicted as that class.
Victor Trevino. Francesco Falciani Group. University of Birmingham, U.K. http://www.bip.bham.ac.uk/bioinf
Goldberg, David E. 1989 Genetic Algorithms in Search, Optimization and Machine Learning. Addison-Wesley Pub. Co. ISBN: 0201157675
For more information see BigBang
.
*confusionMatrix()
.
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 | ## Not run:
#bb is a BigBang object
cpm <- classPredictionMatrix(bb)
cpm
cm <- confusionMatrix(bb)
cm
#equivalent and quicker because classPredictionMatrix is provided
cm <- confusionMatrix(bb, cpm)
cm
specificityClass(bb, cm)
specificityClass(bb, cpm)
specificityClass(bb)
# all are equivalent
sensitivityClass(bb, cpm)
sensitivityClass(bb, cm)
sensitivityClass(bb)
# all are equivalent
## End(Not run)
|
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