| Package Name | Access | Summary | Updated |
|---|---|---|---|
| vsearch | public | A versatile open source tool for metagenomics (USEARCH alternative). | 2025-10-06 |
| msisensor2 | public | MSIsensor2 is a novel algorithm based machine learning, featuring a large upgrade in the microsatellite instability (MSI) detection for tumor only sequencing data, including Cell-Free DNA (cfDNA), Formalin-Fixed Paraffin-Embedded(FFPE) and other sample types. | 2025-10-06 |
| hictk | public | Blazing fast toolkit to work with .hic and .cool files | 2025-10-06 |
| scispacy | public | A full SpaCy pipeline and models for scientific/biomedical documents. | 2025-10-06 |
| carpedeam | public | CarpeDeam - A metagenomic assembler for heavily damaged ancient datasets. | 2025-10-06 |
| coot-headless | public | Coot Headless API - Software for macromolecular model building. | 2025-10-06 |
| regain-cli | public | Bayesian-network pipeline for ARG/virulence co-occurrence analysis. | 2025-10-06 |
| scarap | public | A toolkit for prokaryotic comparative genomics | 2025-10-05 |
| carp | public | carp - quantify the rearrangement complexity of pangenomes and their graphs. | 2025-10-05 |
| triqler | public | A combined identification and quantification error model of label-free protein quantification. | 2025-10-05 |
| edentity | public | eDentity metabarcoding pipeline | 2025-10-05 |
| cmat | public | ClinVar Mapping and Annotation Toolkit. | 2025-10-05 |
| hmftools-pave | public | PAVE annotates SNV/MNV/INDEL calls with consequence on corresponding genes, transcripts, and proteins. | 2025-10-05 |
| hmftools-lilac | public | LILAC is a WGS tool to determine HLA Class I types. | 2025-10-05 |
| macs2 | public | Model Based Analysis for ChIP-Seq data | 2025-10-05 |
| snakemake-minimal | public | A popular workflow management system aiming at full in-silico reproducibility. | 2025-10-04 |
| snakemake | public | A popular workflow management system aiming at full in-silico reproducibility. | 2025-10-04 |
| r-cnaqc | public | Copy number quality control | 2025-10-04 |
| panorama | public | A robust pangenome-based method for predicting and comparing biological systems across species. | 2025-10-04 |
| bactopia-py | public | A Python package for working with Bactopia. | 2025-10-04 |
| meta-neuro | public | Medial Tractography Analysis (MeTA) | 2025-10-03 |
| mikado | public | A Python3 annotation program to select the best gene model in each locus | 2025-10-03 |
| coreprofiler | public | CoreProfiler, a robust and integrable cgMLST software. | 2025-10-03 |
| tooldistillator | public | Tool to extract and aggregate information from different tool outputs to JSON parsable files | 2025-10-03 |
| biobb_godmd | public | Biobb_godmd is a BioBB category for GOdMD tool (protein conformational transitions). | 2025-10-03 |
