Entering edit mode

6.5 years ago

harelarik
▴
90

**I want to use the output values of voomWithQualityWeights as an input for further analysis (e.g., input for network).**

The outputs of voomWithQualityWeights are:

- The $E should actually be: logCpm+0.5 for each gene regardless of voom normalization.
That does not include the voom normalization.
- weights- are "numeric matrix of inverse variance weights" .
These are probably only the weights for each observation (observation= gene X sample).
- $sample.weights- weight normalization per sample.

**How do I extract the voom normalized value for each observation?**

Is it $E of each observation multiplied by weight of each observation? (just multiplication?)? How should I combine the sample weight?

Thank you.