NewmanPaired-class | R Documentation |
Represents the reusults of computing the Newman Paired test statistic on one or more paired samples.
In practice, users will use the pairedStat
function to
construct an object of the NewmanPaired
class. Hand
construction is strongly discouraged.
pairedMean
:A matrix of size N (number of features) by S (number of sample pairs). The mean expression of each feature in each paired sample. Also called "A" in the M-versus-A plots of the microarray era.
difference
:A matrix of size N (number of features) by S (number of sample pairs). The difference (perturbed - base) in expression of each feature in each paired sample. Also called "M" in the M-versus-A plots of the microarray era.
smoothSD
:A matrix of size N (number of features) by S (number
of sample pairs). The results of fitting a loess smooth to the
relationship between the PairedMean
and the observed estimate
of standard deviation (i.e., abs(difference)/sqrt(2)
).
nuStatistics
:A matrix of size N (number of features) by S (number of sample pairs). The Newman paired statistics, nu.
pValues
:A matrix of size N (number of features) by S (number of sample pairs). Empirical p-values for the Newman statistics.
Select a subset of features or sample pairs.
The dimension, N by S, of the object.
Plot the results of the analysis of one sample pair.
Plot a histogram of the p-values for one sample-pair.
Kevin R. Coombes krc@silicovore.com
Abrams ZB, Joglekar A, Gershkowitz GR, Sinicropi-yao S, Asiaee A, Carbone DP, Coombes KR. Personalized Transcriptomics: Selecting Drugs Based on Gene Expression Profiles. Preprint.
pairedStat
, bankStat
showClass("NewmanPaired")
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