Bulk RNA-seq deconvolution by scRNA-seq with multi-reference datasets

Documentation for package ‘SCDC’ version 0.0.0.9000

CreateSCDCpropObj	Create user-defined SCDC_prop object, as the SCDC_ENSEMBLE input
deconv_simple	Simple deconvolution function using W-NNLS
DemoPlot	Demographic figure for single cells
generateBulk_allcells	Construct Pseudo bulk samples
generateBulk_norep	Construct Pseudo bulk samples - random
getCPM0	Normalize matrix / vector
getESET	Get ExpressionSet
getSearchGrid	Grid search matrix
SCDC_basis	Basis Matrix
SCDC_basis_ONE	Basis matrix for single cells from one subject
SCDC_ENSEMBLE	ENSEMBLE function
SCDC_peval	Evaluate deconvolved proportions
SCDC_prop	Proportion estimation
SCDC_prop_ONE	Proportion estimation function for one-subject case
SCDC_prop_ONE_subcl_marker	Tree-guided proportion estimation for ONE subject
SCDC_prop_subcl_marker	Tree-guided proportion estimation
SCDC_qc	Clustering QC
SCDC_qc_ONE	Clustering QC for single cells from one subject
SCDC_yeval	Evaluate predicted gene expression levels
wheat_map	Heatmap for ENSEMBL weight selection, with four measures
wt_prop	Calculate cell type proportions by suggested weights
wt_y	Calculate cell type proportions by suggested weights