The biclust Package - NexTag Supports Open Source Initiatives

More documents

Recommendations

Info

18 parallelCoordinatesjaccardindJaccardindDescriptionAn adaption of the Jaccard Index for clustering is calculated.Usagejaccardind(bicres1,bicres2)Argumentsbicres1bicres2A object of class BiclustA object of class BiclustDetailsThe function calculates the percentage of datapoints in the same bicluster structure from all datapointsat least included in one bicluster.Author(s)Sebastian Kaiser 〈sebastian.kaiser@stat.uni-muenchen.de〉Examples## Not run:data(BicatYeast)res1
writeBiclusterResults 19ArgumentsxbicResultThe data matrix of the bicluster to be drawnBiclustResult object with a bicluster result setnumber Bicluster to be drawn from the result set ’bicResult’plotConditionsIf ’TRUE’, condition profiles are drawn, so each line represents one of the conditionsin the bicluster. Otherwise, gene profiles are drawn. Default ’TRUE’absoluteLimitsIf ’TRUE’, absolute limits are used, so expression levels from the minimum tothe maximum of the complete data matrix are considered. Otherwise, minimumand maximum are minimum and maximum expression levels grouped in thebicluster. Default ’TRUE’Author(s)Rodrigo Santamaria 〈rodri@usal.es〉See AlsodrawHeatmap for alternative representation of biclusters.bubbleplot for simultaneous representation of biclusters.Examples#Random 100x50 matrix with a single, up-regulated 10x10 biclusters2=matrix(rnorm(5000),100,50)s2[11:20,11:20]=rnorm(100,3,0.3)set.seed(1)bics
Page 3 and 4: BCCC 3Examplestest
Page 5: BCSpectral 5ValueReturns an Biclust
Page 8 and 9: 8 Biclust-classExamplesdata(BicatYe
Page 10 and 11: 10 SyntrenEcoliExamplesEisenYeastEi
Page 12 and 13: 12 binarizeExamplestest
Page 14 and 15: 14 bubbleplotDetailsPosition of cir
Page 16 and 17: 16 discretizeExamples#Simplified ye
Page 20 and 21: 20 writeBiclusterResultsArgumentsfi
Page 22: 22 INDEXBiclustMethod-class, 9, 11B

The biclust Package - NexTag Supports Open Source Initiatives

You also want an ePaper? Increase the reach of your titles

Delete template?

Save as template?