Explore projects

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

The first step to begin with obitools and Bash

design primers for intrapopulation metabarcoding

Understand the NCBI database and to do request using entrez and Rentrez

DNA Metabarcoding analyse on RAPIDRUN data with OBITOOLS encapsulated in SNAKEMAKE

data test to check metabarcoding workflow processing

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.

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.

number of SNPs, distance between consecutive loci (in bp) and number of SNPs located on a coding region for each species

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

DNA Metabarcoding analyse on RAPIDRUN data with OBITOOLS encapsulated in SNAKEMAKE

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.

This project permits to check the specificity of already designed primers.

Analysis around palinurus ortus

Some basic tests to check websites :

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