Michael Love

For me, the difference between the two approaches are a focus on effect sizes (where we recommend since 2014 performing effect size shrinkage and using thresholded tests to define regions...

Here is how I conceive of the impacts of this decision: * we are not affirming these are all null, but that this is the subspace where we are enriched...

Agree.

Thanks for the note. That's a good question, I think some of the SEQC papers did compare RUV and SVA, but that was a while ago and there may be...

Great question. We’ve recently been implementing and then assessing correlation tests including Pearson and Spearman. I believe these would basically give the detection power of ordinal testing. I like the...

We have already tested a lot the phenotype ~ integer, or phenotype ~ continuous, with time series and pseudotime analyses respectively. Things look good in simulation and the real data...

hi @JosephLalli I wanted to return to this. We've been thinking a lot in the lab about different aspects of modeling QTL. We've focused on distributional questions lately, and less...

Let’s chat on zoom as I think there’s a lot to discuss, I’m at ENAR until Wednesday. What’s a good email to reach out?

I think we’ll need to get Gencode + decoy hash values from @rob-p. Correct Rob? We’ll work out a pipeline.

Just more information: a short term fix would be to use `linkedTxomes` to connect the index to the source yourself. But we really want these indices to automatically connect to...