The immune-deconvolution module contains several heatmaps of xCell scores averaged across groupings, including histologies and molecular subtypes for certain histologies. These plots should be removed because:
xCell scores cannot be compared across cell types, and heatmaps are misleading because they make it seem like you can compare across either dimension
Averaging scores may not be robust given the heterogeneity across samples
What changes need to be made? Please provide enough detail for another participant to make the update.
Remove current heatmaps from the immune-deconvolution module to make way to updated viz coming in subsequent issues.
What input data should be used? Which data were used in the version being updated?
N/A
When do you expect the revised analysis will be completed?
jharenza
commented
2 years ago
What analysis module should be updated and why?
The
immune-deconvolutionmodule contains several heatmaps ofxCellscores averaged across groupings, including histologies and molecular subtypes for certain histologies. These plots should be removed because:xCellscores cannot be compared across cell types, and heatmaps are misleading because they make it seem like you can compare across either dimensionWhat changes need to be made? Please provide enough detail for another participant to make the update.
Remove current heatmaps from the
immune-deconvolutionmodule to make way to updated viz coming in subsequent issues.What input data should be used? Which data were used in the version being updated?
N/A
When do you expect the revised analysis will be completed?
1-2 days
Who will complete the updated analysis?
@sjspielman