GitLab

Ceci est un dépôt exemple pour git.

The first step to begin with obitools and Bash

gitbooks des formations et toutes les documentations publiques

Useful information about Rana temporaria genome and mitogenome. RADseq digestion, choices of restriction enzyme, RNA probe design

a shiny application to query information about our metabarcoding data

This project has for goal to filtrate efficiently eDNA sequences after PCR amplification and NGS, in order to eliminate the false sequences generated by these technologies.

DNA Metabarcoding analyse on RAPIDRUN data with OBITOOLS encapsulated in SNAKEMAKE

Workflow Application Wrapper

Some basic tests to check websites :

https certificates, checksum of the index web page, HTTP answers.

Shiny App Generator

Web Interface for COntainer PAckaging.

This Web application allows people to generate Singularity recipe or Dockerfiles from a Web User Interface.

Here is a version of the pipeline "only_obitools" using snakemake workflow management system.

Collection of scripts to build a reference database.

OTU clustering with SWARM on RAPIDRUN data encapsulated in SNAKEMAKE

système expert de choix d’un modèle halieutique de production comportant une variable environnementale, puis ajustement et validation statistique du modèle.

This project is based on the idea that gathering similar sequences allows to faithfully study them by eliminating sequences generated from PCR or NGS errors.

This project presents a pipeline based on OBITools commands in order to eliminate sequences interpreted as coming from PCR errors and to assign each remaining sequence to a taxon thanks to a reference database.