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b/man/featureScoreVisualization.Rd |
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% Generated by roxygen2: do not edit by hand |
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% Please edit documentation in R/scAI_plotting.R |
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\name{featureScoreVisualization} |
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\alias{featureScoreVisualization} |
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\title{visualize cells on the 2D space with features overlayed} |
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\usage{ |
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featureScoreVisualization(object, feature.use = NULL, feature.scores, |
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method = "VscAI", colormap = "RdPu", color.direction = 1, |
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nCol = NULL, xlabel = "VscAI1", ylabel = "VscAI2", show.axes = T, |
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cell.size = 0.3, show.legend = T, show.legend.combined = F) |
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} |
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\arguments{ |
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\item{object}{scAI object} |
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\item{feature.use}{a vector of features} |
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\item{feature.scores}{a matrix containing the feature scores} |
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\item{method}{dimensional reduction method, e.g., VscAI, tsne, umap} |
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\item{colormap}{RColorbrewer palette to use} |
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\item{color.direction}{Sets the order of colours in the scale. If 1, the default, colours are as output by RColorBrewer::brewer.pal(). If -1, the order of colours is reversed.} |
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\item{nCol}{number of columns of the plot} |
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\item{xlabel}{label shown on x-axis} |
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\item{ylabel}{label shown on y-axis} |
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\item{show.axes}{whether show the axes} |
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\item{cell.size}{the size of points (cells)} |
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\item{show.legend}{whether show individual legend} |
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\item{show.legend.combined}{whether just show one legend} |
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} |
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\description{ |
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visualize cells on the 2D space with features overlayed |
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} |