In wguo-research/scCancer: A package for automated processing of single cell RNA-seq data in cancer

r h.i.r h.ii Cell malignancy estimation

Using the cell malignancy results from each sample, we can get following plots.

Here is the t-SNE plot colored by malignancy score (left) and type (right).

plot_grid(results$malign.plot$p.malignScore.Point, 
          results$malign.plot$p.malignType.Point, ncol = 2)

(Hi-res image: left, right)

Here is a bar plot showing the relationship between cell cluster and cell malignancy type.

results$malign.plot$p.malignType.bar

(Hi-res image: view)

The estimated cell malignancy scores and types can be found in the column Malign.score and Malign.type of the table file cellAnnotation.txt.

h.ii <- h.ii + 1

wguo-research/scCancer documentation built on May 26, 2024, 9:12 p.m.