User: prakashpandey1111

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Posts by prakashpandey1111

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Comment: C: R package to perform functional enrichment of clustered human gene data
... "gcSample" for geneCluster(from guide) used here is of different type(list) having entrezid's along with their cluster whereas i have accession numbers along with their cluster(cl$cluster).How to make my clustered data suitable for input? ck <- compareCluster(geneCluster = gcSample, fun = " ...
written 12 months ago by prakashpandey11110 • updated 11 months ago by RamRS22k
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Comment: C: R package to perform functional enrichment of clustered human gene data
... datanew<-read.csv("C:/Users/sony/Downloads/new for clust.txt",as.is = TRUE,header = TRUE,sep = "\t",row.names = 1) logData<-log2(datanew) eset<- new("ExpressionSet", exprs=as.matrix(logData)) esetS <- standardise(eset) cl <- mfuzz(esetS,c=4,m=2) mfuzz.plot(eset ...
written 12 months ago by prakashpandey11110 • updated 11 months ago by RamRS22k
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Comment: C: R package to perform functional enrichment of clustered human gene data
... I performed fuzzy c means using Mfuzz & now i'm confused with the compareCluster function of clusterProfiler package. How to input my Mfuzz result to compareCluster? i performed fuzzy c means using Mfuzz for my expression of 91 uniprot accession numbers across three time points. ...
written 12 months ago by prakashpandey11110
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Use of clusterProfiler R package
... I want to know what input type compareCluster supports? I performed fuzzy c-means clustering using Mfuzz & now i want to calculate enriched functional categories of each gene clusters.My initial data for clustering was of 91 uniprot ids across three time points.I did this after clustering to hav ...
functional enrichment written 12 months ago by prakashpandey11110 • updated 12 months ago by jared.andrews072.7k
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R package to perform functional enrichment of clustered human gene data
... I want to perform functional enrichment for my clustered data. Please suggest me R package so that i can implement it on my clustered data ...
R written 12 months ago by prakashpandey11110 • updated 12 months ago by Dattatray Mongad320
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Comment: C: Match multiple columns to find common elements
... I'm struggling to import table here. I used %in% but it compares 2 column at a time. I want to compare all of them simultaneously in single run ...
written 12 months ago by prakashpandey11110
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Match multiple columns to find common elements
... How to find common elements from multiple columns. say i have 20 columns(A,B,C...) & each column consists of number of elements. What i need is to find out common elements of column A in the rest of the remaining 19 columns & vice versa for other columns B,C..... & frequency ...
R written 12 months ago by prakashpandey11110 • updated 12 months ago by genomax69k
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issues regarding topGO usage
... I have a expression set of 91 uniprot ids across three time points. I performed fuzzy c-means clustering using Mfuzz & now i wish to perform enrichment analysis using topGO but i am confused with the input data required and the steps involved in to use topGO. I referred topGO manual but i'm con ...
topgo written 12 months ago by prakashpandey11110 • updated 12 months ago by Kevin Blighe45k

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