README.md
In hanjunwei-lab/crmSubpathway: Identify cancer-related metabolic subpathways
crmSubpathway: Identify cancer-related metabolic subpathways
Description: The crmSubpathway package is a systematic biological tool to identify cancer-related metabolic subpathways. The main capabilities of this tool are as follows:
1. This function uses the k-clique algorithm to split the metabolic pathways in the KEGG database into metabolic subpathways.
2. A stable metabolic subpathway activity matrix is constructed by GSVA or ssGSEA methods.
3. Cancer-related metabolic subpathways are identified through differential analysis.
4. Visualization
Installation:
library(devtools)
install_github("hanjunwei-lab/crmSubpathway")
use：library(crmSubpathway)
The crmSubpathway is published in Frontiers in Oncology. Please cite the following article when using crmSubpathway:
Xudong Han, Donghua Wang, Qingfei Kong and Junwei Han. Inference of Subpathway Activity Profiles Reveals Metabolism Abnormal Subpathway Regions in Glioblastoma Multiforme. Frontiers in Oncology. https://doi.org/10.3389/fonc.2020.01549.
hanjunwei-lab/crmSubpathway documentation built on Jan. 26, 2021, 8:50 a.m.
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crmSubpathway: Identify cancer-related metabolic subpathways
Description: The crmSubpathway package is a systematic biological tool to identify cancer-related metabolic subpathways. The main capabilities of this tool are as follows: 1. This function uses the k-clique algorithm to split the metabolic pathways in the KEGG database into metabolic subpathways. 2. A stable metabolic subpathway activity matrix is constructed by GSVA or ssGSEA methods. 3. Cancer-related metabolic subpathways are identified through differential analysis. 4. Visualization
Installation:
library(devtools)
install_github("hanjunwei-lab/crmSubpathway")
use：library(crmSubpathway)
The crmSubpathway is published in Frontiers in Oncology. Please cite the following article when using crmSubpathway:
Xudong Han, Donghua Wang, Qingfei Kong and Junwei Han. Inference of Subpathway Activity Profiles Reveals Metabolism Abnormal Subpathway Regions in Glioblastoma Multiforme. Frontiers in Oncology. https://doi.org/10.3389/fonc.2020.01549.
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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