| Package Name | Access | Summary | Updated |
|---|---|---|---|
| pyvolve | public | Pyvolve is an open-source Python module for simulating sequences along a phylogenetic tree according to continuous-time Markov models of sequence evolution. | 2025-10-07 |
| ipcr | public | In-silico PCR with mismatch thresholds and pretty alignment output. | 2025-10-07 |
| hyphy | public | An open-source software package for comparative sequence analysis using stochastic evolutionary models. | 2025-10-07 |
| nifflr | public | NIFFLR: Novel IsoForm Finder using Long RNASeq reads. | 2025-10-07 |
| genometools-genometools | public | GenomeTools genome analysis system. | 2025-10-06 |
| nextflow | public | A DSL for data-driven computational pipelines http://nextflow.io | 2025-10-06 |
| dartunifrac | public | DartUniFrac is an ultra-fast UniFrac algorithm that scales to millions of samples. It was designed based on optimal balanced parenthesis and Weighted MinHash sketching. | 2025-10-06 |
| staramr | public | Scan genome contigs against the ResFinder and PointFinder databases | 2025-10-06 |
| annembed | public | annembed is an ultra-fast and scalable non-linear dimension reduction/embedding algorithm (similar to UMAP or t-SNE) for large-scale biological data | 2025-10-06 |
| omamer | public | OMAmer - tree-driven and alignment-free protein assignment to sub-families | 2025-10-06 |
| somalier | public | Fast sample-swap and relatedness checks on BAMs/CRAMs/VCFs/GVCFs. | 2025-10-06 |
| amulety | public | Python package to create embeddings of BCR amino acid sequences. | 2025-10-06 |
| iobrpy | public | Immuno-Oncology Biological Research using Python (IOBRpy) | 2025-10-06 |
| kegalign-full | public | KegAlign: A Scalable GPU-Based Whole Genome Aligner | 2025-10-06 |
| dipper | public | DIPPER: An ultrafast tool for phylogenetic tree reconstruction. | 2025-10-06 |
| dxpy | public | DNAnexus Platform API bindings for Python | 2025-10-06 |
| alloshp | public | From mapped reads to Single Homeologous Polymorphisms (SHPs): pipeline for phylogenetic studies of allopolyploids | 2025-10-06 |
| f5c | public | An optimised re-implementation of the call-methylation and eventalign modules in Nanopolish. | 2025-10-06 |
| atac | public | No Summary | 2025-10-06 |
| sim4db | public | No Summary | 2025-10-06 |
| snoscan | public | Search for C/D box methylation guide snoRNA genes in a genomic sequence | 2025-10-06 |
| 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 |
