For more information about these tools see either the appropriate download page or the Computational Epigenetics Research page.
DXM
Deconvolution of Subpopulations Existing in Methylation Data. DXM performs a local deconvolution of DNA methylation data for one or more regions of the genome. It solves for the methylation profiles of major allelic subpopulations from the bisulfite sequencing data of a heterogeneous sample. DXM does not require prior knowledge of the number of subpopulations or types of cells to expect.
DXM: https://github.com/edwardslab-wustl/dxm
ME-Class/ME-Class2
Methylation and Expression Classification. Performs integrative analysis of DNA methylation and expression data to determine which genes are potentially regulated by methylation and the underlying patterns and features that aid that determination. ME-Class2 adds the ability to integrate 5-hydroxymethylcytosine (5hmC) profiling data as well.
WIMSi
Washington University Interpolated Methylation Signatures – Integrative analysis of DNA methylation and expression data to determine signatures of DNA methylation that associate with expression changes.
Copyright Information
Copyright 2013. The WIMSi package is copyright of Washington University, St. Louis, Missouri. All Rights Reserved.
Copyright 2015. The ME-Class package is copyright of Washington University, St. Louis, Missouri. All Rights Reserved.
Copyright 2017. The ME-Class2 package is copyright of Washington University, St. Louis, Missouri. All Rights Reserved.
Copyright 2019. The DXM package is copyright of Washington University, St. Louis, Missouri. All Rights Reserved.
Copying Permission Statement
WIMSi, ME-Class, ME-Class2, and DXM are free software: you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
WIMSi, ME-Class, ME-Class2, DXM are distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details.
You should have received a copy of the GNU General Public License along with the software. If not, see http://www.gnu.org/licenses/.
If you are interested in other licensing options, please contact:
Office of Technology Management
Washington University in St. Louis
Email: otm@dom.wustl.edu
Phone: +1 314.747.0920