Description Usage Arguments Value See Also Examples
Retrieves the output of the anota2seqResidualOutlierTest function from the Anota2seqDataSet.
1 2 3 4 | anota2seqGetResidOutlierTest(object)
## S4 method for signature 'Anota2seqDataSet'
anota2seqGetResidOutlierTest(object)
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object |
An Anota2seqDataSet. |
A list with the following items:
confInt: The selected confInt (see function arguments).
rnormIter: The number of sampled data sets.
outlierMatrixLog: A logical matrix describing which residuals were outliers in the last iteration of the analysis.
meanOutlierPerIteration: The fraction outliers per iteration.
obtainedComparedToExpected: The ratio of the expected number of outlier residuals compared to the expected number of outliers given the selected confInt.
nExpected Number of expected outlier residuals.
nObtained Number of obtained outliers residuals.
1 2 3 4 5 6 7 8 9 10 11 12 13 14 | data(anota2seq_data)
Anota2seqDataSet <- anota2seqDataSetFromMatrix(
dataP = anota2seq_data_P[1:100,],
dataT = anota2seq_data_T[1:100,],
phenoVec = anota2seq_pheno_vec,
dataType = "RNAseq",
normalize = TRUE)
# Run QC, it is mandatory for anota2seqResidualOutlierTest
Anota2seqDataSet <- anota2seqPerformQC(Anota2seqDataSet)
# Run the Residual outlier testing
Anota2seqDataSet <- anota2seqResidOutlierTest(Anota2seqDataSet)
#Get resdidual outlier testing
rot <- anota2seqGetResidOutlierTest(Anota2seqDataSet)
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