User: nature.hunger
nature.hunger • 20
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Posts by nature.hunger
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... These days I got an answer from your Pathview web server. Because it has no hsa04215 pathway in your web server. But it has hsa04215 pathway in KEGG website (http://www.kegg.jp/pathway/hsa04215).
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written 20 months ago by
nature.hunger • 20
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... Thanks! It works fine now!
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written 21 months ago by
nature.hunger • 20
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... Thank you very much! It is the reason that I am not using the newest version of clusterProfilier. It might be the reason of my Bioconducter(V3.3) is not the newest version. So when I following the installation instructions as:
source("https://bioconductor.org/biocLite.R")
biocLite("clusterProfiler ...
written 21 months ago by
nature.hunger • 20
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... Thanks. I have a another question. why setReadable function can't support in enrichKEGG function output with entrenz gene ID but can be used in uniprot ID. I had google that the previously version had the readable parameter, but it is useless now.
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written 21 months ago by
nature.hunger • 20
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... Thanks a lot ! I am trying to imply it into differentially expression genes list from my projects. And I had try these two methods. The number of genes in the same enriched KEGG pathway are different and consequently results to the KEGG pathway rank differently. So that I can only put my gene list i ...
written 21 months ago by
nature.hunger • 20
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... I am trying to runing the example of clusterprofiler from "http://www.bioconductor.org/packages/devel/bioc/vignettes/clusterProfiler/inst/doc/clusterProfiler.html#abstract" and "https://guangchuangyu.github.io/2016/05/convert-biological-id-with-kegg-api-using-clusterprofiler/". I got an question in ...
written 21 months ago by
nature.hunger • 20
• updated 21 months ago by
Guangchuang Yu • 1.0k
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I got an Error about only 0's may be mixed with negative subscripts. I read a txt file as data.frame , it has more than 100 rows with 2 columns. And 4 genes are enriched in hsa04215 pathway. And I extract it from data.frame and transform to a vector, look like
> xx
836 596 5599 ...
written 21 months ago by
nature.hunger • 20
• updated 11 months ago by
map2085 • 10
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