| Package Name | Access | Summary | Updated |
|---|---|---|---|
| krakentools | public | KrakenTools scripts for analysis of Kraken/KrakenUniq/Kraken2/Bracken results | 2025-08-02 |
| perl-bio-samtools | public | Read SAM/BAM files | 2025-08-01 |
| enabrowsertools | public | enaBrowserTools is a set of scripts that interface with the ENA web services to download data from ENA easily. | 2025-08-01 |
| perl-html-tidy | public | (X)HTML validation in a Perl object | 2025-08-01 |
| rtk | public | rtk - rarefaction toolkit for OTU tables | 2025-08-01 |
| ontime | public | Extract subsets of ONT (Nanopore) reads based on time | 2025-08-01 |
| impg | public | impg: implicit pangenome graphs. | 2025-08-01 |
| emblmygff3 | public | An efficient way to convert gff3 annotation files into EMBL format ready to submit. | 2025-08-01 |
| clair3-illumina | public | Clair3 with libraries to support variant calling using Illumina short-reads. Version in sync with Clair3. | 2025-08-01 |
| clair3 | public | Clair3 is a small variant caller for long-reads. Compare to PEPPER (r0.4), Clair3 (v0.1) shows a better SNP F1-score with ≤30-fold of ONT data (precisionFDA Truth Challenge V2), and a better Indel F1-score, while runs generally four times faster. Clair3 makes the best of both worlds of using pileup or full-alignment as input for deep-learning based long-read small variant calling. Clair3 is simple and modular for easy deployment and integration. | 2025-08-01 |
| seqfu | public | DNA sequence utilities | 2025-08-01 |
| oligomap | public | Oligomap is a program for fast identification of nearly-perfect matches of small RNAs in sequence databases. | 2025-08-01 |
| stereogene | public | StereoGene: Rapid Estimation of Genomewide Correlation of Continuous or Interval Feature Data | 2025-08-01 |
| sorted_nearest | public | Find nearest interval. | 2025-08-01 |
| metabolishmm | public | Constructing phylogenies and performing functional annotations with HMM markers. | 2025-08-01 |
| ngseqbasic | public | Basic ChIP/DNaseI/ATAC analysis - from FASTQ to visualisation of tracks, in one command. | 2025-08-01 |
| geno2phenotb | public | Prediction of Mycobacterium tuberculosis drug resistance from WGS data | 2025-08-01 |
| tortoize | public | Application to calculate ramachandran z-scores | 2025-08-01 |
| bioemu | public | Biomolecular emulator for scalable emulation of protein equilibrium ensembles with generative deep learning | 2025-08-01 |
| hapcut2 | public | Tools for haplotype assembly from sequence data | 2025-08-01 |
| spacerextractor | public | Extract CRISPR spacers from metagenome short reads. | 2025-08-01 |
| libsequence | public | A C++ class library for evolutionary genetics. | 2025-08-01 |
| genometools-genometools | public | GenomeTools genome analysis system. | 2025-07-31 |
| bcbio-gff | public | A Python library to read and write Generic Feature Format (GFF). | 2025-07-31 |
| gndiff | public | GNdiff compares scientific names from two files | 2025-07-31 |
