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GrAnnoT Singularity container

Container for grannot v1.0.2

GrAnnoT is an annotation transfer tool for pangenome graphs. It can transfer linear genome annotations to a pangenome graph containing the genome, and also transfer the pangenome graph's annotations on the genomes it contains. It also outputs complementary information such as the alignments of the transfered genes, or a presence-absence matrix.

https://forge.ird.fr/diade/dynadiv/grannot

Package installation using Miniconda3 py310_24.3.0-0 All packages are in /opt/miniconda/bin & are in PATH

Default runscript: grannot based on python 3.10 bedtools v2.31.1 installed

Usage: singularity exec grannot_v1.0.2.sif grannot --help ./grannot_v1.0.2.sif --help

Get image: image singularity (V>=3.3) is automaticly built (gitlab-ci) and pushed on the registry using the .gitlab-ci.yml

can be pull (singularity version >=3.3) with:
singularity pull grannot_v1.0.2.sif oras://registry.forgemia.inra.fr/panannot/apps/grannot/grannot:latest