assignCellType |
Align cell types when reference proportions are known |
beta_emp |
Simulated methylation 450K array data with related |
CBS_PBMC_array |
An example dataset for partial reference-free cell composition estimation from tissue gene expression |
cedar |
Testing cell type specific differential signals for specified phenotype by considering DE/DM state corrleation between cell types. |
ChooseMarker |
Choose cell type-specific markers from pure cell type profiles or single cell data |
csDeconv |
Improve reference-free deconvolution using cross-cell type differential analysis |
csTest |
Testing differential signals for specified phenotype and cell type(s). |
DEVarSelect |
Feature selection for reference-free deconvolution using cross-cell type differential analysis |
findRefinx |
findRefinx |
fitModel |
Fit model with proportions and phenotypes. |
GetPrior |
Get prior knowledge for supported tissue types |
makeDesign |
Generate design matrix from input phenotypes and proportions. |
MDeconv |
Estimate cell compoisitons via partial reference-free deconvolution. |
myprojectMix |
Replicate the function myprojectMix() from RefFreeEWAS package |
myRefFreeCellMix |
Replicate the function RefFreeCellMix() from RefFreeEWAS package |
myRefFreeCellMixInitialize |
Replicate the function RefFreeCellMixInitialize() from RefFreeEWAS package |
plotCorr |
Show DE/DM state correlation between cell types |
RA_100samples |
An example dataset for cellular proportion estimation and multiple factor design |
Tsisal |
Complete Deconvolution of DNA methylation data based on TOAST and SISAL |