Datasets

Gene Ontology OBO

curl -L http://www.geneontology.org/ontology/go.obo > gene_ontology_ext.obo

Test datasets

Below we provide a couple of modified reduced datasets to test the pipeline. They can be run in short time and using SQLite as database engine.

Microcaecilia unicolor (amphibian)

Ref: https://www.ncbi.nlm.nih.gov/assembly/GCF_901765095.1

• aMicUni.selected_genes.gff.gz
• aMicUni.selected_proteins.fa.gz

Rhodotorula toruloides (fungi)

Ref: https://fungi.ensembl.org/Rhodotorula_toruloides_gca_001255795/Info/Index

• Rhodotorula_toruloides.selected_genes.gff3.gz
• Rhodotorula_toruloides.selected_proteins.fa.gz

Example datasets

Closer to real life cases with configuration, input and output files of the examples mentioned in Vlasova A. (2021) can be found here.