Explore projects

Pan1c: a Snakemake workflow to build chromosome level pangenomes.

Geomatic tool for landscape discretization and pesticides transfert

Docs : https://optirrighive.pages.mia.inra.fr/OptirrigCORE

What is “OptirrigCORE” package ? The OptirrigCORE package in R is based on the Optirrig model. It facilitates the extraction and formatting of observation data used by the model, as well as the integration of plant, soil and yield descriptions. It supports various analytical methods, such as Ex-Post and Ex-Ante analyses, with a view to drawing up an optimised irrigation schedule based on the criteria. The package includes all the calculation tools needed to describe biophysical processes with a generalist approach. It can be used as a dependency or complement to modify and reinterpret biophysical descriptions. What’s more, it automates the modeling process, the description of biophysical processes and the analysis of results and performance, guaranteeing a reproducible approach. It also makes it easy to compile results in automated reports.

Perform Hi-C data differential analysis based on pixel-level differential analysis and a post hoc inference strategy to quantify signal in clusters of pixels. Clusters of pixels are obtained through a connectivity-constrained two-dimensional hierarchical clustering.

panREPET is a pipeline detecting shared Transposable Element (TE) insertions among a pangenome. It takes in charge multiple de novo whole-genome assemblies of the same species. It compares TE copies between each pair of genomes then identifies TE copies shared by a group of individuals.

https://genotoul-bioinfo.pages-forge.inrae.fr/d-genies/dgenies-new-proto-ui

DeFIS is a pipeline for archeo-ichtyologists and biologists allowing the recognition of diadromous fishes with ancient DNA sample based metrics method (such as Kmers ratio and Jaccard index) between references sequences and the samples.

https://explore-metabar.sk8.inrae.fr/

System for Evaluation of Agriculture faiSability using indicatOrs combiNation Système d’évAluatIon de la faiSabilité climatique des productiONs agricoles

Chaîne de traitement (sélection, calcul) d’indicateurs agroclimatiques sur un ensemble de points géographiques. Elle est utilisée en tant que telle ou pour le calcul des indicateurs dans SICLIMA.

SIDO (Système d’Information pour les Données Orphelines) est une application web qui permet de déposer les données récoltées par des sources de données orphelines, c'est-à-dire qui ne disposent pas de système d’information, dans une base de données dédiée. tickets

Partie applicative d'AgroMetInfo.