User: nakanomasayuki265

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Posts by nakanomasayuki265

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error in library(clusterProfiler)
...   I would like to execute the clusterProfiler in R package. But the following error message comes out. How should I do to solve this problem? Error: 'GSEA_internal' is not an exported object from 'namespace:DOSE' Error: package or namespace load failed for ‘clusterProfiler’ ...
R written 4 months ago by nakanomasayuki2650 • updated 4 weeks ago by ningzhilin0
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How to install BiocInstaller_1.22.3 on mac OSX yosemite
... I used Yosemite macOS10.10.5.   I would like to install BiocInstaller_1.22.3. I tried following command, but failed. What is the wrong command?   install.packages("http://bioconductor.org/packages/3.3/bioc/bin/macosx/yosemite/contrib/3.3/BiocInstaller_1.22.3.zip", repos=NULL)   Warning in in ...
R written 4 months ago by nakanomasayuki2650 • updated 4 months ago by Mike Smith2.1k
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Comment: C: how to install AnnotationHub_2.4.2
... Thank you for replying my question. I used Yosemite macOS10.10.5. >install.packages("http://bioconductor.org/packages/3.3/bioc/bin/macosx/yosemite/contrib/3.3/BiocInstaller_1.22.3.zip", repos=NULL) downloaded 0 bytes Warning in install.packages :   URL 'http://bioconductor.org/packages/3.3/bio ...
written 4 months ago by nakanomasayuki2650
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how to install AnnotationHub_2.4.2
... I would like to install older version AnnotationHub_2.4.2 under R version 3.3.0 or R version 3.3.3. But package ‘AnnotationHub_2.4.2’ is not available (for R version 3.3.0). Now AnnotationHub_2.6.4 is installed. How can I install older version of AnnotationHub ?     ...
R written 4 months ago by nakanomasayuki2650 • updated 4 months ago by Martin Morgan ♦♦ 20k
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How to use clusterprofiler
... I'm in trouble about how to use clusterprofiler. Which files I should prepare? I have a gff3 file, but Gff2GeneTable did not  accept the gff3 file. How I can solve it? And, I think I had to prepare GO list file. What format file should I prepare?    ...
R written 5 months ago by nakanomasayuki2650
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obtain from the gene names from heat map.2
... I am trying to know gene names from a heatmap made by heatmap. 2. Since I have many genes, the gene names (row labels) are not readable. I typed following. Please teach me how to know gene names from heatmap. data <- read.table("sample.txt") data <- as.matrix(data) out_f <- "cluster2.png" ...
R written 5 months ago by nakanomasayuki2650

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