Containerised programs used in "Combining Annotation Software to Identify Orthologous genes (CASIO) provides a new dataset of orthologous genes for swallowtail butterflies"

These are Singularity containers used in the Snakemake pipeline CASIO: Combining Annotation Software to Identify Orthologous genes. This pipeline is described in the manuscript “Combining Annotation Software to Identify Orthologous Genes (CASIO) Provides a New Dataset of Orthologous Genes for Swallowtail Butterflies” by Vigo et al. (2025). The Snakemake workflow and instructions for its use are available at : https://github.com/Gwenaelle-Vigo/CASIO. The containers are called directly by CASIO and are automatically downloaded by the installation script provided in the GitHub repository. Please read the full documentation on how to use CASIO here: https://github.com/Gwenaelle-Vigo/CASIO. repeatM.sif : contains RepeatModeler 2.0.7, RepeatMasker 4.2.0 and BRAKER2 Busco.sif : BISCO 5.8.2 miniprot_scipio.sif : Miniprot 0.13, Scipio 1.4 cleaning_orthology.sif : see https://github.com/Gwenaelle-Vigo/CASIO