I am a 3rd year PhD student at Inria Rennes lab’ (FR), at the GenScale team.
I am working on genome assembly and scaffolding. For this purpose, I am implementing graphs’ algorithms and graphs’ structures, and I am formalising these problems thanks to linear programming.
I also play the piano. You can find here some improvisations ;)
π€ Work colleagues
π€ PhD Inria main supervisor Rumen Andonov
π€ PhD INRAe main supervisor Jean-FranΓ§ois Gibrat
π€ PhD second supervisor Dominique Lavenier
π Some links
π CV HAL victor-epain
𦣠Mastodon @vepain@sciences.re (to be preferred)
π Twitter @VictorEpain (will maybe suppress)
π¦ GitLab @vepain (can be deleted)
π± GitHub vepain
πΉ Piano @ProfesseurChep
π« Contact
π¨ Inria laboratory e-mail <first_name>.<last_name><at>inria.fr
π¨ Professional out of Inria lab’ <first_name>.<last_name><at>laposte.net
You can find my CV below partitioned into several categories.
π£οΈ π° Accepted Talks & Papers
2023
- co-chairman for bioinformatic session (Recherche OpΓ©rationnelle en Bio-Informatique)
- short abstract: Linear Integer Programming Approaches for Chloroplast Genome Scaffolding
- talk
2022
- chairman for bioinformatic session
- short abstract: Linear integer programming approach for chloroplast genome scaffolding
- talk
- proceeding: Optimal Scaffolding for Chloroplastsβ Inverted Repeats
- talk proceeding act
- short abstract: The reverse complement symmetry advantage of DNA fragments relationships for their storage in a directed graph
- talk
2021
- extended abstract: Optimal de novo assemblies for chloroplast genomes based on inverted repeats patterns
- talk
- short abstract: The advantage of DNA reads overlapsβ reverse complement symmetry for their storage in an oriented graph
- talk
π« Teaching
2021
Algorithmic Methods for Graph
Level: Third year Bachelor (INFO & MIAGE)
Exercises lectures: 40h
Operational Research
Level: First year Master (MIAGE)
Practical tutorial: 12h
Algorithmic for Bioinformatic
Level: Second year Master (Bioinformatic)
Lecture: 2h
Exercises lectures: 4h
Practical tutorial: 6h
2020
Algorithmic Methods for Graph
Level: Third year Bachelor (INFO & MIAGE)
Exercises lectures: 40h
Operational Research
Level: First year Master (MIAGE)
Practical tutorial: 12h
Statements and organisations of the practical tutorials have been rewritten to use
PuLP
Python
package. The new versions are currently being taught for M1 MIAGE/INFO and M2 Bioinformatic Operational Research classes.
π₯ Collaborations
2021-2022
Heinrich Heine University DΓΌsseldorf from December 2021 to January 2022
- ALBI team, welcomed by Gunnar Klau
π₯Ό Collective Responsibilities
2023
Data Knowledge Management IRISA/Inria Department
- organisation of monthly department seminar
- organisation of departments days (1.5 days)
- round table about how we can participate in the laboratory’s and university’s activities (teaching, council etc.)
- round table about scientific publication system
Nicomaque PhD association
- Treasurer
2022
Data Knowledge Management IRISA/Inria Department
- organisation of monthly department seminar
- organisation of departments days (1.5 days)
JOBIM2022 French national conference
- referent organiser for social activity
Organisation of internship oral training for the first and second Master degrees students
2021
Supervisor of Pauline Hamon-Giraud (first Master degree student in bioinformatic)
Organisation of internship oral training for the second Master degree students
π¬ Vulgarisation
2022
Organisation of PhD vulgarisation film festival Sciences en Cour[t]s
- the recorded event (FR)
- collaboration with Espace des Sciences for the FΓͺte de la Science
2021
- making a 5min animated film: Cocktail de bio-informatique (FR) for PhD vulgarisation film festival
π Working Papers
2023
Global exact optimisations for chloroplast genome multimeric forms scaffolding
- see khloraascaf software page for more information
- preprint: Inverted Repeats Scaffolding for a Dedicated Chloroplast Genome Assembler
- preprint: Integer Programming Approach for Nested Pairs Genome Scaffolding
2022
- N.b.: used as a try of a thesis chapter
- see revsymg software page for more information
- preprint: Overlap Graphs for Assembling and Scaffolding Algorithms: Paradigm Review and Implementation Proposals