clusterProfiler in Bioconductor 2.8
In recently years, high-throughput experimental techniques such as microarray and mass spectrometry can identify many lists of genes and gene products. The most widely used strategy for high-throughput...
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Functional similarity analysis of human virus-encoded miRNAs
http://www.jclinbioinformatics.com/content/1/1/15/abstract miRNAs are a class of small RNAs that regulate gene expression via RNA silencing machinery. Some viruses also encode miRNAs, contributing to...
View ArticleclusterProfiler: an R Package for Comparing Biological Themes Among Gene...
Increasing quantitative data generated from transcriptomics and proteomics require integrative strategies for analysis. Here, we present an R package, clusterProfiler that automates the process of...
View Articlewhy clusterProfiler fails
Recently, there are some comments said that sometimes clusterProfiler failed in KEGG enrichment analysis. kaji331 compared cluserProfiler with GeneAnswers and found that clusterProfiler gives larger p...
View ArticleKEGG enrichment analysis with latest online data using clusterProfiler
KEGG.db is not updated since 2012. The data is now pretty old, but many of the Bioconductor packages still using it for KEGG annotation and enrichment analysis. As pointed out in 'Are there too many...
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DAVID functional analysis with clusterProfiler
clusterProfiler was used to visualize DAVID results in a paper published in BMC Genomics. Some users told me that they may want to use DAVID at some circumstances. I think it maybe a good idea to make...
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