Error in scv$pl$velocity_embedding_stream

[ZivTQ]

Hi when i studied with this Tutorial, https://github.com/JEFworks-Lab/veloviz/blob/package_extras/docs/scVeloVignette.md

I got this error: #Error: AttributeError: can't set attribute 'categories'

somebody know what happened? thank you

[LylaAtta123]

Hi,

Thanks for trying out the package! Can you please provide the part of the code that generated the error?

Thanks!

[ZivTQ]

thanks for your reply: The code was listed as below: `veloviz = buildVeloviz( curr = curr, proj = proj, normalize.depth = TRUE, use.ods.genes = TRUE, alpha = 0.05, pca = TRUE, nPCs = 20, center = TRUE, scale = TRUE, k = 20, similarity.threshold = 0.2, distance.weight = 1, distance.threshold = 1, weighted = TRUE, verbose = FALSE )

emb.veloviz <- veloviz$fdg_coords

plotEmbedding(emb.veloviz, colors = cell.cols[rownames(emb.veloviz)], main='VeloViz with dynamical velocity', xlab = "VeloViz X", ylab = "VeloViz Y", alpha = 0.8, cex.lab = 1.5)

plotVeloviz(veloviz)

a.plot <- adata

#remove unconnected cells from anndata object connected.cells <- rownames(emb.veloviz) a.plot.vv <- a.plot[a.plot$obs_names$isin(connected.cells)] a.plot.vv$obsm$update("X_veloviz1" = emb.veloviz)

#get colors plot.cols = unique(cell.cols) c = unlist(sapply(c(1:length(col)), function(x) which(plot.cols == col[x]))) plot.cols = plot.cols[c]

#plotting params pt.size = 50 dnsty = 0.7 plt.size = c(3.5,3.5)

scv$pl$velocity_embedding_stream(a.plot.vv, basis='umap', density = 0.8, cutoff_perc = 0, n_neighbors = 20L, title = "",legend_fontoutline = 2, size = 50, alpha = 0.6, legend_fontsize = 12, linewidth = 1.5, show = FALSE, figsize = c(5,5), palette = plot.cols) ` All the code run successfully, except scv$pl$velocity_embedding_stream. I got error"Error: AttributeError: can't set attribute 'categories'"

thanks