Identify likely duplicate samples from genomic or meta-data

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Documentation for package ‘doppelgangR’ version 1.30.0

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doppelgangR-package Identify likely duplicate samples from genomic or meta-data
colFinder Calculate pairwise similarities of colData between samples for a list containing two DataFrame
corFinder Calculate pair-wise correlations between samples using the expr() slots of a list of two ExpressionSets.
DoppelGang DoppelGang S4 class
DoppelGang-class DoppelGang S4 class
doppelgangR doppelgangR
dst Skew-t Distribution
mst.mle Maximum likelihood estimation for a (multivariate) skew-t distribution
outlierFinder Identifies outliers in a similarity matrix.
phenoDist Calculate distance between two vectors, rows of one matrix/dataframe, or rows of two matrices/dataframes.
phenoFinder Calculate pairwise similarities of phenoData between samples for a list containing two ExpressionSets
plot,DoppelGang Histograms of all pairwise sample correlations, showing identified doppelgangers.
plot-method Histograms of all pairwise sample correlations, showing identified doppelgangers.
plot-methods Histograms of all pairwise sample correlations, showing identified doppelgangers.
plot.DoppelGang Histograms of all pairwise sample correlations, showing identified doppelgangers.
plot.doppelgangR Histograms of all pairwise sample correlations, showing identified doppelgangers.
print-method DoppelGang S4 class
pst Skew-t Distribution
qst Skew-t Distribution
rst Skew-t Distribution
show-method DoppelGang S4 class
smokingGunFinder Find doppelgangers based on "smoking gun" phenotypes - those that should be unique to each patient.
st.mle Maximum likelihood estimation for a (multivariate) skew-t distribution
summary-method DoppelGang S4 class
vectorHammingDist Calculate Hamming Distance between two vectors, using pairwise complete observations.
vectorWeightedDist Calculate a weighted distance between two vectors, using pairwise complete observations.