Tag: ConsensusClusterPlus

Immune Infiltration and N(6)-Methyladenosine ncRNA Isoform Detection in Acute Lung Injury

Acute lung injury (ALI) is a severe form of sepsis that is associated with a high rate of morbidity and death in critically ill individuals. The emergence of ALI is the result of several factors at work. Case mortality rates might range from 40% to 70%. Researchers have discovered that…

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ConsensusClusterPlus package

ConsensusClusterPlus package 0 Hi guys, How can I check the plots individually, when I run the ConsensusClusterPlus command they are generated above each other very fast and end up with Tracking plot, I cant find them anywhere else, I tried to generate them as PDFs or as png but nothing…

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How to extract most contributing features for each cluster

ConsensusClusterPlus: How to extract most contributing features for each cluster 0 Hi, I am using the R package ConsensusClusterPlus. Here is an example with the ALL data: library(ConsensusClusterPlus) library(ALL) data(ALL) d = exprs(ALL) res <- ConsensusClusterPlus(d, clusterAlg = “pam”, finalLinkage = “average”, distance = “spearman”, plot = NULL, reps =…

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How to extract plots from ConsensusClusterPlus package

Hello All, Is there a way to extract the plots separately from the ConsensusClusterPlus package? For example, using the example data from the package, I can print the last three plots as below, library(ALL) data(ALL) d=exprs(ALL) mads=apply(d,1,mad) d=d[rev(order(mads))[1:5000],] d = sweep(d,1, apply(d,1,median,na.rm=T)) library(ConsensusClusterPlus) par(mfrow=c(1,3)) title=tempdir() results = ConsensusClusterPlus(d,maxK=6,reps=50,pItem=0.8,pFeature=1, title=title,clusterAlg=”hc”,distance=”pearson”,seed=1262118388.71279) But,…

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