| Package Name | Access | Summary | Updated |
|---|---|---|---|
| hyplas | public | Hybrid long- short- plasmid assembler. | 2025-09-29 |
| ipcr | public | In-silico PCR with mismatch thresholds and pretty alignment output. | 2025-09-29 |
| nextstrain-cli | public | The Nextstrain command-line interface (CLI). | 2025-09-29 |
| clumppling | public | Cluster matching and permutation program with integer linear programming. | 2025-09-29 |
| phykit | public | PhyKIT is a UNIX shell toolkit for processing and analyzing phylogenomic data. | 2025-09-29 |
| pybiolib | public | BioLib Python Client. | 2025-09-29 |
| apscale | public | Advanced Pipeline for Simple yet Comprehensive AnaLysEs of DNA metabarcoding data. | 2025-09-29 |
| hifi_trimmer | public | hifi_trimmer is a tool for filtering and trimming extraneous adapter hits from a HiFi read set using a BLAST search. | 2025-09-29 |
| r-hmm | public | Functions for hidden Markov Models (HMM). | 2025-09-29 |
| pysradb | public | Python package for retrieving metadata and downloading datasets from SRA/ENA/GEO | 2025-09-29 |
| cytoscape | public | Cytoscape: an open source platform for network analysis and visualization. | 2025-09-29 |
| metabolights-utils | public | MetaboLights open metabolomics data repository command line interface (CLI), common MetaboLights data models, utility methods and classes. | 2025-09-29 |
| afragmenter | public | Schema-free, tunable protein domain segmentation tool for AlphaFold structures | 2025-09-29 |
| plassembler | public | Quickly and accurately assemble plasmids in hybrid sequenced bacterial isolates. | 2025-09-29 |
| cogent3 | public | COmparative GENomics Toolkit 3: genomic sequence analysis within notebooks or on compute systems with 1000s of CPUs. | 2025-09-29 |
| gbdraw | public | A genome diagram generator for microbes and organelles. | 2025-09-29 |
| captus | public | Captus: Assembly of Phylogenomic Datasets from High-Throughput Sequencing data. | 2025-09-29 |
| sopa | public | Spatial-omics pipeline and analysis. | 2025-09-29 |
| stellarscope | public | Single-cell Transposable Element Locus Level Analysis of scRNA Sequencing | 2025-09-29 |
| perl-mojo-pg | public | Mojolicious PostgreSQL | 2025-09-29 |
| gatk4-spark | public | Genome Analysis Toolkit (GATK4) | 2025-09-29 |
| gatk4 | public | Genome Analysis Toolkit (GATK4) | 2025-09-29 |
| mutalyzer_hgvs_parser | public | Mutalyzer HGVS variant description parser | 2025-09-29 |
| sccellfie | public | A tool for inferring metabolic activities from single-cell and spatial transcriptomics | 2025-09-29 |
| tomm40_wgs | public | TOMM40_WGS: Genotyping TOMM40’523 Poly-T Polymorphisms Using Whole-Genome Sequencing. | 2025-09-29 |
