Author: Brian Nadel
The data and scripts here represent the
Contents are as follows
Application:
As detailed in the GEDIT paper, we have applied GEDIT to tissue samples taken in vivo in 3 contexts.
These are a) the GTEX database b) the mouse body atlas and c) a set of skin samples from humans with various skin diseases
GEDITv1.6:
This contains the most recent version of GEDIT
ReferenceMatrices:
We have obtained or assembled 11 references matrices that are saved here and available for use by other parties
Synthetic Mixtures and Parameter Evaluation:
As detailed in figure 2 of the GEDIT manuscript, and in the supplementary materials,
the development of GEDIT involved the generation of 10,000 simulated mixtures that were used to tune several parameter settings.
ToolsComparison:
This directory contains the scripts and data to run 4 deconvolution tools on 3 mixtures of known proportions.
We did this with 4 possible choices of reference matrices in each case, and compared the quality of predictions.