Field of work
I am a senior scientist at the Leibniz Institute for the Analysis of Biodiversity Change (LIB) in Bonn, (Research Museum Alexander Koenig).
Research interests
Development of methods for the analysis of large data sets.
I am interested in
- genome analyses
- differential gene extression
- machine learning
Further information
Software:
BaitFisher and BaitFilter
A software suite to design hybrid enrichment baits from multiple sequence alignments. Published in 2016 BaitFisher became a widely used software. It is avaiable in github: BaitFisher and BaitFilter on GitHub: https://github.com/cmayer/BaitFisher-package
Phobos
A microsatellite, minisatellite and satellite search tool by Christoph Mayer
http://www.ruhr-uni-bochum.de/spezzoo/cm/cm_phobos.htm
Phobos has been integrated into the following molecular biology analysis tools, which in particular offer a convenient interfaces for designing flanking primers of microsatellites.
Commercial users always need to obtain a user license directly from the author of Phobos, Christoph Mayer.
PolyMoSim
A program to simulate molecular evolution, such that every branch of a tree can be assigned a different evolutinary model by Christoph Mayer
SAMS
Splits Analysis Methods, Christoph Mayer, Sandra Meid, Wolfgang Waegele.
STAMP
Microsatellite marker design extension for the Staden package.
DeepNNPhylogeny:
https://github.com/cmayer/DeepNNPhylogeny
Reference:
Mayer, C., Sann, M., Donath, A., Meixner, M., Podsiadlowski, L., Peters, R.S., Petersen, M., Meusemann, K., Liere, K., Wägele, J.-W., Misof, B., Bleidorn, C., Ohl, M., Niehuis, O., 2016. BaitFisher: A Software Package for Multispecies Target DNA Enrichment Probe Design. Mol. Biol. Evol. 33, 1875–1886. https://doi.org/10.1093/molbev/msw056
Kraemer, L., Beszteri, B., Gaebler-Schwarz, S., Held, C., Leese, F., Mayer, C., Poehlmann, K. & Frickenhaus, S. (2009)
STAMP: Extensions to the STADEN sequence analysis package for high throughput interactive microsatellite marker design.
BMC Bioinformatics 10:41.
Phobos plugin for Geneious.
Geneious is a commercial and easy to use DNA and protein sequence analysis tool.
In order to use the tandem repeat detection capabilities of Phobos in Geneious one has to install the command-line version of Phobos (version 3.3.10 or higher) as well as the Phobos plugin.
Sat-stat - Statstical analysis of Phobos output. Sat-stat compuputes tandem repeat characteristics of genomes analysed with Phobos. (Will be made available soon.)
