Question: [DESeq2] Slight difference between lfcMLE and my calculated log2 fold change
gravatar for Mike
9 months ago by
Mike10 wrote:

The values I calculate manually for log2 fold change (using R or Excel) are always slightly different than the lfcMLE value, I'm curious why that would be (sorry, stats isn't my strong suit). For example (each condition has 3 replicates):

Condition 1 normalized counts: 18536.58274, 20600.98049, 22578.73105
Condition 2 normalized counts: 12705.48353, 8803.154338, 12085.95176

Condition 1 average: 20572.09809
Condition 2 average: 11198.19654

Calculated log2 fold change: log2(11198.19654/20572.09809) = -0.877422531
lfcMLE: -0.877250202

ADD COMMENTlink modified 9 months ago by Michael Love18k • written 9 months ago by Mike10
gravatar for Michael Love
9 months ago by
Michael Love18k
United States
Michael Love18k wrote:

There are slight modifications to the fitting procedure which make it more robust.

ADD COMMENTlink written 9 months ago by Michael Love18k
Please log in to add an answer.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.2.0
Traffic: 301 users visited in the last hour