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Hello there !

I am a bioinformatician at the CHUL in Quebec, Canada. I got a Bachelor in Biology at the University of Lausanne (UNIL) in 2020 and a Msc in Bioinformatics from the Université Claude-Bernard Lyon 1 (France).

Interests:

My main interests in bioinformatics is the development of tools. I work on metagenomics.

Languages:

Python

bash

R

Willing to learn C++

Repo:

You will find :

  • for my work at the museum
  • MNHN-Tree-Tools for easier dependencies access;
  • my work on a web site for biochemical reaction visuals in AR (Augmented Reality)
  • MetaDBGWAS, the extension of DBGWAS to a metagenomic scale (bugged)
  • k-TSP-classifier, a machine-learning script in R to classify exczema types based on gene expression
  • various forks of tools
  • META-DIFF, a pipeline for metagenomics

Louis-Mael Gueguen's Projects

basecount icon basecount

Counts bases proportions in sequences. Parallel execution.

binarytotext icon binarytotext

C++ project to convert abundance into presence/absence pattern.

checkm icon checkm

Assess the quality of microbial genomes recovered from isolates, single cells, and metagenomes

checkm2 icon checkm2

Assessing the quality of metagenome-derived genome bins using machine learning

k-tsp-classifier icon k-tsp-classifier

Script that splits the dataset into k stratified sub-datasets for k-TSP cross-validation.

meta-diff icon meta-diff

This is the repository of the pipeline META-DIFF, which detects sequences in differential abundances between two conditions, and annotates them taxonomicaly and functionaly.

metadbgwas icon metadbgwas

Beginig of the expansion of DBGWAS to a metagenomic scale.

recursivebinarydivisor icon recursivebinarydivisor

Script to use the mnhn-tree-tools in a specific way. Uses cluster_dbscan_pca to divide each cluster in two clusters, until further division cannot be done.

rkmerbroom icon rkmerbroom

🧹🦷 aKmerBroom: Ancient oral DNA decontamination using Bloom filters on k-mer sets

sgrep1.0 icon sgrep1.0

copy of tool by Stephen C. Losen because the code seems to have disappeared from sourceforge, duplicating from edygert just in case

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