MEDIPS does not allow to analyze multiple (>2) conditions. Please consider our R/BioC package qsea, which also has MeDIP-seq specific functionalities but also allows the use of a design matrix.
Lukas Chavez, Ph.D.
Assistant Professor, Department of Medicine
University of California, San Diego (UCSD)
Biomedical Research Facility 2 | Room 2A24
9500 Gilman Drive | MC 0765 | La Jolla, CA 92093
T: 858 246 1919 | Email: email@example.com<mailto:firstname.lastname@example.org>
On Nov 28, 2018, at 3:47 PM, mtefit [bioc] <email@example.com<mailto:firstname.lastname@example.org>> wrote:
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User mtefit<https: support.bioconductor.org="" u="" 18571=""/> wrote Question: Comparing more than 2 experimental groups with MEDIPS?<https: support.bioconductor.org="" p="" 115611=""/>:
I am using MEDIPS to analyze MEDIP-seq data but I need to compare multiple conditions. Is it possible to use this package to detect differential coverage between more than 2 experimental conditions?
Post tags: medips, medip-seq, dna methylation, dmr analysis
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