| Package Name | Access | Summary | Updated |
|---|---|---|---|
| pyrodigal | public | Python bindings to Prodigal, an ORF finder for microbial sequences. | 2025-07-18 |
| pyhmmer | public | Cython bindings and Python interface to HMMER3. | 2025-07-18 |
| hal2vg | public | A tool for converting from hal to vg format, as well as other tools generally useful for cactus. | 2025-07-18 |
| gb_taxonomy_tools | public | These are four simple utilities which perform certain manipulations and visualization tasks on GenBank taxonomic information. | 2025-07-18 |
| d4binding | public | The C/C++ binding for the D4 file format. | 2025-07-18 |
| metanovo | public | Produce targeted databases for mass spectrometry analysis. | 2025-07-18 |
| ccp4srs | public | CCP4 Storage, Retrieval and Search framework for small-molecule data | 2025-07-18 |
| pupmapper | public | Tool & python package for calculating genome wide pileup mappability. | 2025-07-18 |
| breakinator | public | Detection of foldback and chimeric read artifacts in PAF files | 2025-07-18 |
| r-erah | public | Automated compound deconvolution, alignment across samples, and identification of metabolites by spectral library matching in Gas Chromatography - Mass spectrometry (GC-MS) untargeted metabolomics. | 2025-07-18 |
| vcf-validator | public | EBI EVA - Validation tool for VCF file format compliance | 2025-07-18 |
| mosdepth | public | Fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing. | 2025-07-18 |
| bactopia-py | public | A Python package for working with Bactopia. | 2025-07-17 |
| cenote-taker3 | public | Cenote-Taker 3: Discover and annotate the virome. | 2025-07-17 |
| bioconductor-lpsymphony | public | Symphony integer linear programming solver in R | 2025-07-17 |
| bioconductor-rbowtie2 | public | An R Wrapper for Bowtie2 and AdapterRemoval | 2025-07-17 |
| minisplice | public | minisplice is a command-line tool to estimate the odds-ratio score of canonical donor (GT) and acceptor (AG) splice sites. It is intended to be used with miniprot or minimap2 for improving alignment accuracy especially for distant homologs.. | 2025-07-17 |
| minigraph | public | Proof-of-concept seq-to-graph mapper and graph generator | 2025-07-17 |
| cdskit | public | A toolkit for processing protein-coding sequences (CDS). | 2025-07-17 |
| isorefiner | public | A refinement tool to identify exon-intron structures of transcript (RNA) isoforms using long reads | 2025-07-17 |
| gcen | public | GCEN: an easy-to-use toolkit for Gene Co-Expression Network analysis and lncRNAs annotation | 2025-07-17 |
| dna-nn | public | Model and predict short DNA sequence features with neural networks. | 2025-07-17 |
| prodigal | public | Prodigal (Prokaryotic Dynamic Programming Genefinding Algorithm) is a microbial (bacterial and archaeal) gene finding program | 2025-07-17 |
| perl-experimental | public | Experimental features made easy | 2025-07-17 |
| phlame | public | Novelty-aware intraspecies profiling of metagenome samples. | 2025-07-17 |
