template.CMS.A | R Documentation |
Mouse CMS template (option A)
template.CMS.A
An object of class data.frame
with 533 rows and 2 columns.
CMS prediction template for NTP method. Marker genes were
identified by converting human CMS template from CMScaller to mouse orthologe using biomaRt.
templates$probe
refers to gene symbols.
Eide PW, Bruun J, Lothe RA, Sveen A. CMScaller: an R package for consensus molecular subtyping of colorectal cancer pre-clinical models. Scientific reports (2017)
Guinney J, Dienstmann R, Wang X, de Reynies A, Schlicker A, Soneson C, et al. The consensus molecular subtypes of colorectal cancer. Nat Med (2015)
Hoshida Y. Nearest Template Prediction: A Single-Sample-Based Flexible Class Prediction with Confidence Assessment. PLoS ONE (2010)
Durinck S, Spellman P, Birney E, Huber W (2009). “Mapping identifiers for the integration of genomic datasets with the R/Bioconductor package biomaRt.” Nature Protocols, 4, 1184–1191.
emat <- TestData_gemm
re <- MmCMS(emat, templates=MmCMS::template.CMS.A, Genesets = c("template.CMS.A"), seed=120)
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