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Tool to check if a new version of an R package (you might be developing) breaks any package which depends on it.

Bash script and optional simple web interface to run R CMD CHECK on every package that depends on the package to test.

A program to detect potential cross contaminations in HTS assembled transcriptomes using expression level quantification

A program to detect potential cross contaminations in HTS assembled transcriptomes using expression level quantification

Here, we reproduce the bioinformatics pipeline used by SPYGEN to generate species environmental presence from raw eDNA data.

Here is a version of the pipeline "only_obitools" using nextflow, a reactive workflow framework and a programming DSL that eases writing computational pipelines with complex data.

A way to setup LDAP synchronization fastly from a debian-like distro.

eDNA paired-end data analysis with assembly/demultiplexing tasks proceeded by VSEARCH/CUTADAPT and taxonomic assignation with ECOTAG

Collections of mitogenome assembly methods from whole genome sequencing data

A workflow designed to clean SINGLE-END fastq files

A collection of scripts used to do genome assemblies from raw sequencing data

Codes Pierre-Edouard Guerin wrote for the scientific paper "Predicting genotype environmental range from genome–environment associations"

GBS workflow using dDocent. This was designed to process GBS data from SEACONNECT project.

MOTU clustering and taxonomic assignation using SWARM method from eDNA NGS raw data

Comparison of multiple bioinformatic programs for each step of eDNA analysis

Simulations of metabarcoding data from fish 12S Teleo1