@th_vairam @abby.vanderlinden
Hello,
I have a few questions and would appreciate your help in this:
What is the base for logFC used in syn11806585 and syn8456721? is it base 2?
Where can I get info for the no. of patients (control vs disease) or no of tissue samples used for the above Differential expression results?
Thank you!
Created by Janet Joy jjoy Thank you @jgockley for the clarification. Could you also point me to where I can download data wherein I can get info for the no. of patients (control vs disease) or no of tissue samples used for the above Differential expression results? This discussion thread sheds some light, but I am not sure ${buttonlink?text=link&url=https://www%2Esynapse%2Eorg/#!Synapse:syn2580853/discussion/threadId%3D3400&highlight=true&align=None}https://www.synapse.org/#!Synapse:syn2580853/discussion/threadId=3400 Hi @abby.vanderlinden & @jjoy,
The code in the provenance window to the right hosted on [github](https://github.com/th1vairam/ampad-DiffExp/blob/bd9766224c2d1515586c9377db7e08a6cb62bcc9/gene_level_analysis/ROSMAP_geneLevel.Rmd#L680) in lines 680 - 697 uses the voom/limma/ebayes methodology to preform normalization/model fitting/differential expression processing. The summary data function :
```
limma::toptable()
```
[returns Log2( Fold Change )](https://www.rdocumentation.org/packages/limma/versions/3.28.14/topics/toptable)
A polite reminder regarding this @jgockley @abby.vanderlinden . Thank you! @jgockley Can you help answer these questions about the v1 rnaSeqReprocessing Study?