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OrderedList (version 1.44.0)

Similarities of Ordered Gene Lists

Description

Detection of similarities between ordered lists of genes. Thereby, either simple lists can be compared or gene expression data can be used to deduce the lists. Significance of similarities is evaluated by shuffling lists or by resampling in microarray data, respectively.

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Version

Version

1.44.0

License

GPL (>= 2)

Maintainer

Claudio Lottaz

Last Published

February 15th, 2017

Functions in OrderedList (1.44.0)

print.OrderedList

Printing Function for OrderedList Objects
OL.result

Three Examples of Class 'OrderedList'
scoreRankings

Score the Comparison of two Rankings
check.test.args

Helper Function to Compute Test Statistics
plot.OrderedList

Plotting Function for OrderedList Objects
preparePermutations

Prepare Permutation and Subsetting Matrices
OrderedList

Detecting Similarities of Two Microarray Studies
overlap

Count Elements in Overlap between two Lists
compareLists

Compare Ordered Lists with Weighted Overlap Score
prepareData

Combining Two Studies into an Expression Set
getOverlap

Extracting the Intersecting IDs From a listComparison Object
shuffledRandomScores

Generates Null-Distribution for List-Overlap-Scores
scoreOrderComparison

Score the Comparison of two Gene Rankings
OL.data

Gene Expression and Clinical Information of Two Cancer Studies