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.
|Author||Xinan Yang, Stefanie Scheid, Claudio Lottaz|
|Date of publication||None|
|Maintainer||Claudio Lottaz <Claudio.Lottaz@klinik.uni-regensburg.de>|
|License||GPL (>= 2)|
check.test.args: Helper Function to Compute Test Statistics
compareLists: Compare Ordered Lists with Weighted Overlap Score
getOverlap: Extracting the Intersecting IDs From a listComparison Object
OL.data: Gene Expression and Clinical Information of Two Cancer...
OL.result: Three Examples of Class 'OrderedList'
OrderedList: Detecting Similarities of Two Microarray Studies
overlap: Count Elements in Overlap between two Lists
plot.OrderedList: Plotting Function for OrderedList Objects
prepareData: Combining Two Studies into an Expression Set
preparePermutations: Prepare Permutation and Subsetting Matrices
print.OrderedList: Printing Function for OrderedList Objects
scoreOrderComparison: Score the Comparison of two Gene Rankings
scoreRankings: Score the Comparison of two Rankings
shuffledRandomScores: Generates Null-Distribution for List-Overlap-Scores