| aspera-connect | 3.7.2 | Data transfer program | Mar 25, 2025 | faspex |
| bioconductor-polyester | 1.12.0 | This package can be used to simulate RNA-seq reads from differential expression experiments with replicates. The reads can then be aligned and used to perform comparisons of methods for differential expression. | Mar 25, 2025 | GPL-3 |
| braker1 | 1.9 | BRAKER1: Unsupervised RNA-Seq-based genome annotation with GeneMark-ET and AUGUSTUS | Mar 25, 2025 | — |
| busco | 3.0.2 | BUSCO provides measures for quantitative assessment of genome assembly, gene set, and transcriptome completeness based on evolutionarily informed expectations of gene content from near-universal single-copy orthologs selected from OrthoDB. | Mar 25, 2025 | MIT |
| genemark_es | 4.33 | Gene Prediction in Eukaryotes | Mar 25, 2025 | — |
| iadhore | 3.0.01 | i-ADHoRe is a highly sensitive software tool to detect degenerated homology relations within and between different genomes. | Mar 25, 2025 | Academic Free Use |
| louvain_generic | 0.3.1 | Community detection tool | Mar 25, 2025 | LGPL3 |
| orthofinder-dl | 1.1.4 | Accurate inference of orthogroups, orthologues, gene trees and rooted species tree made easy! With Diamond instead of Blast, and Louvain instead of MCL | Mar 25, 2025 | GPLv3 |
| perl-exception-class | 1.40 | A module that allows you to declare real exception classes in Perl | Mar 25, 2025 | perl_5 |
| perl-logger-simple | 2.0 | Implementation of the Simran-Log-Log and Simran-Error-Error modules | Mar 25, 2025 | perl_5 |
| perl-object-insideout | 4.04 | Object::InsideOut - Comprehensive inside-out object support module | Mar 25, 2025 | perl_5 |
| pyadhore | 0.1.2 | Python code for handling i-ADHoRe output. | Mar 25, 2025 | gplv3 |
