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- ksrates Public
ksrates is a tool to position whole-genome duplications relative to speciation events using substitution-rate-adjusted mixed paralog-ortholog Ks distributions.
- MINI-AC Public
Motif-Informed Network Inference based on Accessible Chromatin (MINI-AC) is a method that combines accessible chromatin data from bulk or single-cell experiments with transcription factor binding site enrichment to learn gene regulatory networks in plants
- EPAN-QC Public
QC of genomes and genome annotations, as part of a pangenome. Code was developed within the context of the ELIXIR EPAN project.
- MINI-EX Public
Motif-Informed Network Inference of cell type-specific gene regulatory networks in plants
- TripleXtract Public
Pipeline for automated extraction of species–gene–trait triples in plants from scientific literature
- DeepDifE Public
- wheat_root_atlas Public
- BirthDeathModel Public
Reciprocally retained genes in the angiosperm lineage show the hallmarks of dosage balance sensitivity
- cross_species_annotation_transfer Public
Framework for transferring single-cell cluster annotations cross-species
- i-ADHoRe Public
i-ADHoRe is a highly sensitive software tool to detect degenerated homology relations within and between different genomes.
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