From ec091eb3961c70ed031f5ed44d10ad802f5a3782 Mon Sep 17 00:00:00 2001 From: gwaygenomics Date: Tue, 28 Nov 2017 09:39:50 -0500 Subject: [PATCH] Add note to README about MAD genes --- README.md | 6 ++++++ 1 file changed, 6 insertions(+) diff --git a/README.md b/README.md index 38a3e27..1295bf6 100644 --- a/README.md +++ b/README.md @@ -20,6 +20,12 @@ We discuss the training and evaluation of Tybalt in our bioRxiv preprint: [_Extracting a Biologically Relevant Latent Space from Cancer Transcriptomes with Variational Autoencoders_](http://www.biorxiv.org/content/early/2017/08/11/174474). +**NOTE:** As discovered by @enricoferrero, the preprint text (`section 2.2`) states +that the top _median_ absolute deviation (MAD) genes were selected for subsetting, +when the data processing code +([`process_data.ipynb`](https://github.com/greenelab/tybalt/blob/master/process_data.ipynb)) +actually outputs the top _mean_ absolute deviation genes. We discuss this discrepancy +and its potential impact in [issue #99](https://github.com/greenelab/tybalt/issues/99). ## The Data