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HTGM
View on CRAN: Click
here
Download and install HTGM package within the R console
Install from CRAN:
install.packages("HTGM")
Install from Github:
library("remotes")
install_github("cran/HTGM")
Install by package version:
library("remotes")
install_version("HTGM", "1.1")
Attach the package and use:
library("HTGM")
Maintained by
Barry Zeeberg
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[Scholar Profile | Author Map]
All associated links for this package
First Published: 2025-04-02
Latest Update: 2025-04-05
Description:
Two papers published in the early 2000's (Zeeberg, B.R., Feng, W., Wang, G. et al. (2003) <doi:10.1186/gb-2003-4-4-r28>) and (Zeeberg, B.R., Qin, H., Narashimhan, S., et al. (2005) <doi:10.1186/1471-2105-6-168>) implement 'GoMiner' and 'High Throughput GoMiner' ('HTGM') to map lists of genes to the Gene Ontology (GO) <https://geneontology.org>. Until recently, these were hosted on a server at The National Cancer Institute (NCI). In order to continue providing these services to the bio-medical community, I have developed stand-alone versions. The current package 'HTGM' builds upon my recent package 'GoMiner'. The output of 'GoMiner' is a heatmap showing the relationship of a single list of genes and the significant categories into which they map. 'High Throughput GoMiner' ('HTGM') integrates the results of the individual 'GoMiner' analyses. The output of 'HTGM' is a heatmap showing the relationship of the significant categories derived from each gene list. The heatmap has only 2 axes, so the identity of the genes are unfortunately "integrated out of the equation." Because the graphic for the heatmap is implemented in Scalable Vector Graphics (SVG) technology, it is relatively easy to hyperlink each picture element to the relevant list of genes. By clicking on the desired picture element, the user can recover the "lost" genes.
How to cite:
Barry Zeeberg (2025). HTGM: High Throughput 'GoMiner'. R package version 1.1, https://cran.r-project.org/web/packages/HTGM. Accessed 05 May. 2025.
Previous versions and publish date:
1.0 (2025-04-02 19:40)
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