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14
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24k
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heatmap.2() get matrix after hierarchical clustering
clustering written 7.2 years ago by Guest User • 12k • updated 7.2 years ago by Thomas Girke • 1.7k
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1000 R tutorials/Links
sequencing microarray genetics visualization network bayesian classification clustering written 9.5 years ago by David Lyon • 320
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error under "hclust" for expression data
clustering written 7.6 years ago by Wang, Li • 180 • updated 7.6 years ago by James F. Reid • 610
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Agilent 2-color Microarray data analysis tutorial
microarray visualization clustering written 9.9 years ago by Chuming Chen • 140 • updated 9.9 years ago by Martin Morgan ♦♦ 24k
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Is the following a correct usage of Limma's removeBatchEffect() for clustered heat map generation?
clustering limma heatmap removebatcheffect written 3.9 years ago by Ekarl2 • 50 • updated 3.9 years ago by Bernd Klaus • 560
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heatmap.2 function and the scale option
microarray clustering written 8.2 years ago by john herbert • 560 • updated 8.2 years ago by Aleš Maver • 80
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Error using function NbClust regarding multiple values in the argument "index" of package NbClust for getting the optimal number of clusters of a dataset
clustering nbclust looping list object function creation written 4.2 years ago by svlachavas • 740 • updated 2.7 years ago by james.tsakalos • 0
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hierarchical clustering - spearman correlation
clustering written 15.1 years ago by Liu, Xin • 130 • updated 15.1 years ago by Wolfgang Huber ♦ 13k
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DESeq Variance Stabilizing Transformation
clustering deseq deseq2 written 6.6 years ago by Hickman, R.J. Richard • 50 • updated 6.6 years ago by Michael Love ♦ 26k
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Clustering in R....
clustering written 16.1 years ago by Marcus • 150 • updated 16.1 years ago by Sean Davis ♦ 21k
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DESeq2 - regularised log transformation blind or not?
clustering deseq2 written 5.8 years ago by Mike Stubbington • 30 • updated 5.8 years ago by Wolfgang Huber ♦ 13k
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Can I use the WGCNA dendrogram to display a heatmap of gene expression?
clustering wgcna heatmap desq2 written 4.6 years ago by Jon Bråte • 160 • updated 4.6 years ago by Dario Strbenac • 1.5k
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Mfuzz: fill.NA - Warning messages: argument is not numeric or logical: returning NA
proteomics clustering timecourse mfuzz bioinformatics written 3.8 years ago by under-waterworld • 0 • updated 3.8 years ago by Laurent Gatto ♦ 1.2k
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ComBat_ Error in solve.default(t(design) %*% design): Lapack routine dgesv: system is exactly singular: U[4, 4] = 0
normalization clustering affy written 5.6 years ago by Guan • 20
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Limma and batch effect
clustering limma differential gene expression removebatcheffect written 2.3 years ago by lirongrossmann • 40 • updated 2.3 years ago by Gordon Smyth ♦ 39k
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WGCNA distance measures, clustering with TOM based on adjacency matrix type = "distance" versus correlation
microarray clustering wgcna written 3.8 years ago by krr • 0 • updated 3.8 years ago by Peter Langfelder • 2.3k
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WGCNA: Different Detect Cut Heights Across Multiple Blocks
clustering wgcna gene expression written 2.7 years ago by ngeraci • 10 • updated 2.7 years ago by Peter Langfelder • 2.3k
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Deseq2. Cluster of an specific list
clustering deseq2 heatmap list file written 4.2 years ago by chariko • 0 • updated 4.2 years ago by Michael Love ♦ 26k
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phyloseq/DESeq gives negative transformed values
microbiome normalization clustering deseq deseq2 written 5.6 years ago by Michael Love ♦ 26k • updated 5.6 years ago by Sophie Josephine Weiss • 130
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Generating heat map of pre-organised data in matrix without clustering using ggplot2 or heatmap.2
clustering written 5.4 years ago by Jakub Stanislaw Nowak • 70 • updated 5.4 years ago by James W. MacDonald ♦ 52k
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450k annotation packages compatible version and analysis with blockFinder (minfi)
annotation clustering convert minfi written 6.1 years ago by Florence Cavalli • 50 • updated 6.1 years ago by Kasper Daniel Hansen ♦ 6.4k
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voom + removeBatchEffect + gene clustering
clustering limma voom removebatcheffect() batch effect written 4.4 years ago by ale.breschi • 10 • updated 4.4 years ago by Gordon Smyth ♦ 39k
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DESeq2
normalization classification clustering deseq cqn deseq2 written 6.8 years ago by Wolfgang Huber ♦ 13k • updated 6.7 years ago by Michael Love ♦ 26k
6
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2.1k
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5 follow
1
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Is ComBat introducing a signal where there is none?
microarray clustering cancer limma written 6.0 years ago by Vegard Nygaard • 110
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Cell type specific cell markers for Seurat based analysis.
clustering single cell seurat written 2.4 years ago by hrishi27n • 20 • updated 2.4 years ago by ankur.chakravarthy.10 • 40
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