Merge pull request #46 from gwaygenomics/tybalt

Tybalt init
greenelab · Aug 8, 2017 · 6b4dd7c · 6b4dd7c
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diff --git a/README.md b/README.md
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-# Variational Autoencoder - Pan Cancer
+# Tybalt 
 
-*Gregory Way and Casey Greene 2017*
+### *A Variational Autoencoder trained on Pan-Cancer Gene Expression*
+
+**Gregory Way and Casey Greene 2017**
 
 [![DOI](https://zenodo.org/badge/97131241.svg)](https://zenodo.org/badge/latestdoi/97131241)
 
 The repository stores scripts to train, evaluate, and extract knowledge from
-a variational autoencoder trained on 33 different cancer-types from The Cancer
+a variational autoencoder (VAE) trained on 33 different cancer-types from The Cancer
 Genome Atlas (TCGA).
 
+The specific VAE model is named [*Tybalt*](https://en.wikipedia.org/wiki/Tybalt)
+after an instigative, cat-like character in Shakespeare's "Romeo and Juliet". Just
+as the character Tybalt sets off the series of events in the play, the model Tybalt
+begins the foray of VAE manifold learning in transcriptomics.
+[Also, deep unsupervised learning likes cats](https://arxiv.org/abs/1112.6209).
+
 ## The Data
 
 TCGA has collected numerous different genomic measurements from over 10,000

diff --git a/...ae_keras_onehidden_warmup_batchnorm.ipynb → tybalt_vae.ipynb b/...ae_keras_onehidden_warmup_batchnorm.ipynb → tybalt_vae.ipynb