Missing colour and hover labels in interactive report volcano plot about differentialabundance HOT 4 OPEN

Follow-up observations in the shiny app:

1. "Assay data" > "Heatmaps": lack of annotation, numbers are shown not gene names/ID.
2. "Gene Info" Gene expression bar plot and contrast table do not load: "waiting for ID list" is displayed in the bar plot and contrast table area, and the gene name doesn't populate in the "Gene" panel.
3. "Differential" > "Differential set intersection": the plots show, but the table doesn't populate "Showing 0 to 0 entries (filtered from NaN total entries".

I'm guessing this and the volcano plot issue are probably all related to the same underlying glitch?

Aaron.

from differentialabundance.

Hello @ajeffs, I stumbled over the same problem some days ago. However, for me, it was quite easily solvable by setting --differential_feature_name_column. Is it possible you did not set the param correctly? Alternatively, could you try --differential_feature_id_column?

from differentialabundance.

Hi @WackerO thanks for the suggestion! I had tried both options before posting here, and neither solved the issue for me.

from differentialabundance.

Hmm, that's unfortunate :'D @ajeffs Do you by any chance have a small dataset with which I could use to reproduce the error?

from differentialabundance.