In jlaffy/scrabble: Perform Exploratory Computational Analyses on Pre-Processed Single-Cell RNA-Sequencing Data

m = useData() binmat = useData(rowcenter = F)

?score_cells m.scores = score_cells(m = m, groups = signatures, binmat = m) head(m.scores)

?assign_cells assignments = assign_cells(m = m.scores, min = 0.5, dif = 0.3) table(names(assignments))

?state_hierarchy
stateNames = colnames(m.scores)
hierarchy.coords = state_hierarchy(m = m.scores,
                                   tl = colnames(m.scores)[1],
                                   tr = colnames(m.scores)[2],
                                   bl = colnames(m.scores)[3],
                                   br = colnames(m.scores)[4])
head(hierarchy.coords)

?plot_hierarchy
plot_hierarchy(emb = hierarchy.coords)

jlaffy/scrabble documentation built on Nov. 16, 2019, 7:56 a.m.