Guillaume Gricourt

Bioinformatician

About me

Engineer in bioinformatics.

Background in NGS analysis: genetic, oncogenetic, shotgun and targeted metagenomics.

Developped Hmn suite, some tools dedicated to extract QC metrics or speed up analysis.

Currently working on metabolic engineering to optimize the production of a compound, design of experience to optimize constructs.

I am always learning as much as I can about software engineering best practices and software architecture.

I also like to spend time learning about tools and code that I see many different repositories using.

I work on personal projects to implement new concepts, I am learning about. Fun projects help me increase my creative side.

Current stack

Current Stack

  • Python vim, black, isort, super-linter
  • Conda channels bioconda, conda-forge
  • Galaxy planemo, bioblend

Experiences

  • Python sklearn, pytorch, rdkit, ...
  • C++ seqan, htslib
  • golang
  • frontend vuejs, nuxtjs
  • database mongodb, neo4j, influxdb

Projects

Some to highlight

HmnFusion

a real double strand dna in a sky to decipher fusions

Detect and quantify fusions for aCAP-Seq

neo4jsbml

a fruit salad like SBML data

Import SBML file into Neo4j

StrainDesign

steel pipes tangled up like flux analysis

Toolbox to optimize biological model