All functions |
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Predefined variables |
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Calculate Jaccard Index |
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Align the single cell RNAseq data to codex data |
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Build a generalized k-Nearest Neighbors Classifier for given reference |
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create a KNN classifier by a given Seurat object |
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Get co-occurrence for given bins |
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Create Seurat object |
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Assign cell type |
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Calculate the dynamic range. |
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check file type |
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Find the nearby cells by a given distance |
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Find variable markers |
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Rescale data using GMM |
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plot heatmap by ggplot2 |
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Normalize the signal by Loess |
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create marker correlation heatmap |
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Neighborhoods analysis |
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Do normalization |
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loess normalization |
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Plot a heatmap for JaccardIndex output |
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predict celltypes by gknn classifier |
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Calculate spatial score |