Mathias Weller

I am a researcher with the Institute for Information Sciences of the French National Science Center

Laboratory of Informatics "Gaspard Monge" (LIGM)
Université Gustave Eiffel (previously called Université Paris EST - Marne-la-Vallée)
Bât Copernic, 5 Bd Descartes
Champs-sur-Marne, 77454 Marne-la-Vallée
Phone: +33 1 60 95 77 49
E-mail:
Room: 4B 105, bâtiment Copernic
For encrypted mails, use my PGP public key (fingerprint 98D5 9418 8AEA 7C23 F535 F63C 2D85 72C3 95F6 6C5B).

My research interests include

Parameterized Algorithmics
Genome Scaffolding
Phylogenetic Networks
Structural Parameterization
Preprocessing and permissive kernelization concepts

Committees

I am involved with the Peer Community In (PCI) Mathematical & Computational Biology (MCB) (see also this easy-to-understand presentation and this PDF addressing criticism)

Organizing Committee of RECOMB-CG 2019

Program Committee of SOFSEM 2020

Software

If not stated otherwise, all software is written by me in C++ and should compile with GCC in any *nix-like environment (including cygwin), see also the included README file. All my projects can also be found on github.

Sudoku	A rule-based sudoku solver implementing the "transitive chain analysis" rule.
TransEd	A solver for the Transitivity Editing problem.
GCClust	A GUI-based solver for the Consensus Clustering problem.
2LP	A solver for the Two-Layer Planarization problem (deprecated, update in progress).
EE	A solver for the Eulerian Extension problem (written in Java by Georg Hieronimus).
CoilCoater	A solver for the Colorful Independent Set problem (written by René v. Bevern).
Status Sequence Analyser	A program to reconstruct a caterpillar tree from a given "status"-sequence.
Genome Scaffolder	A program to join and overlap preassembled contigs in fasta format into scaffolds using paired end information given as a scaffold graph. Needs CPLEX.

Teaching

In 2017, I lectured on SCAFFOLDING at the University of Montpellier. [slides]

In 2018 and 2020, I lectured on algorithmic bioinformatics at ENS Cachan.

In 2022, I am lecturing on algorithmic bioinformatics at Université Paris Dauphine. [slides: part 1, part 2] coding project: description, test generator]

Publications

See also this self-maintained PDF, my Google Scholar Profile, or this DBLP page.