Maxime Borry

pydamage. Damage parameter estimation for ancient DNA

protinter. Protein interaction calculator

sam2lca. Lowest Common Ancestor from a SAM/BAM/CRAM alignment file

comp_dnds. Measure evolutionary pressure by efficiently computing dN/dS according to the Nei-Gojobori method

sourcepredict. Prediction/source tracking of metagenomic samples source using machine learning

adrsm. Ancient DNA Read Simulator for Metagenomic

meetdock. Protein-Protein Docking software

pcrEfficiency. pcr efficiency predictor

ncbi-genome-download. Python script for downloading bacterial genomes from NCBI ftp

microbiome_tutorial. Microbiome analysis tutorial

kraken-nf. Simple Kraken2 Nextflow pipeline

admapipe. Ancient Dna Metagenomics Analysis PIPEline

bamAlignCleaner. Removes unaligned references in BAM alignment file

StatInfHiThr. Repository for edX course : PH525.3x STATistical INFerence and modeling for HIgh-THRoughput Experiments

floria-strainer. An add-on to floria for clustering reads into strains

coGSEA. coGSEA : Comparative Gene Set Enrichment Analysis

mgenottate. Nextflow

coproid-article. Analysis scripts for coproID article

organdiet. Metagenomics pipeline for human diet analysis using organelles genomes

microbiomeNormalization. Normalisation of microbiome count data

DNA_tools. A set of tools to play with/analyze genomics data

scikit-bio. scikit-bio is an open-source, BSD-licensed, Python package providing data structures, algorithms, and educational resources for bioinformatics.

corecomb. Toolkit to deal with core-genome alignments recombination detection

nf-admix. Simple nextflow pipeline to run unsupervised ADMIXTURE

corephylo. core genome phylogenies

adnamap. aDNA mapping to multiple genomes

pydamage_poster. poster of pydamage

metaphlan-nf. Simple Metaphlan 2 Nextflow pipeline

dada2-nf. dada2 nextflow pipeline

coGSEA_shiny. Shiny GUI of coGSEA

Restaurants-Paris. A map of all the restaurants in Paris

PubTwitMed. A twitter bot publishing regularly all recent scientific articles from pubmed related to a given subject.