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pyotb is a library that enables easy use of the Orfeo Tool Box (OTB) in Python

Still under development

GenoFig is a tool for graphical vizualisation of annotated genetic regions, and homologous regions comparison. It was designed to be as easy to use as possible for biologists.

List of workflows (nextflow/snakemake) tested for Genotoul Cluster.

Retranscription d'audio en txt

panTEannot serially annotates transposable elements from multiple genomes using a common reference library. The annotation is a light version of TEannot from REPET package. These annotations can be used as input for the panREPET tool.

Geomatic tool for landscape discretization and pesticides transfert

STAC tools to simplify STAC use: local STAC creation, filter and process STAC ItemCollections (local and remote).

Documentation

Command line tool to compute volume of soil samples from images to estimate soil bulk density as in

Coulouma G, Feurer D, Vinatier F, Huttel O. Assessing new sensor-based volume measurement methods for high-throughput bulk density estimation in the field under various soil conditions. Eur J Soil Sci. 2021; 72: 2049–2061. https://doi.org/10.1111/ejss.13115

ICEscreen detects and annotates ICEs (Integrative and Conjugative Elements) and IMEs (Integrative and Mobilizable Elements) in Firmicutes genomes.