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