Explore projects

Code used by https://mbb.univ-montp2.fr/MBB/dnabushmeat

scripts to create our own reference database with our own sequences only and using the NCBI taxonomy

DNA Metabarcoding analyse on RAPIDRUN data with OBITOOLS encapsulated in SNAKEMAKE

mirror of modulefiles repository on gitlabpriv (but there is no reason to let this repository in a private state)

Seek positions of variants onto genome and check if they are on an annotated region e.g. coding region. Then seek the proteic function of the gene

Using Git in a team: learn and practice Git and discover its features !

data test to check metabarcoding workflow processing

DNA Metabarcoding analyse on RAPIDRUN data with OBITOOLS encapsulated in SNAKEMAKE

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

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

Ceci est un dépôt exemple pour git.

a shiny application to query information about our metabarcoding data

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

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.

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.

Required dependencies for the Seascape genomics class.

A shiny app that use esquisse package to quickly draw simple graphics with ggplot2 R package.