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EuGene Eukaryote Pipeline - Nextflow rewrite of the legacy pipeline

This repository contains various sources for INRAE in LaTeX:

Beamer template for INRAE presentation. This is an unofficial template, inspired by the official ppt presentation template, provided as is and without any guarantee. Images remain the property of INRAE.

CSS files. It is also an unofficial template, without the original comment and inspired by the 2023 CSS files (évaluation allégée et annexe).

Python code to map metabolites (including lipids) to metabolic networks using ontology.

Nextflow pipeline to extract syntenic blocks using the MCScanX program.

Collapsing identical sequences read from FASTQ/A files into a unique sequence and reporting reads counts

Présentation au format RMarkdown réalisée avec 'Xaringan' de formation au package R 'airGRiwrm'

SHiNeMaS is a database with its web interface, dedicated to the management of the history of seed lots and related data like phenotyping, environment and cultural practices. SHiNeMaS is freely available under GNU Affero GPL Licence.

https://shinemas2.readthedocs.io/