| Package Name | Access | Summary | Updated |
|---|---|---|---|
| usher | public | Ultrafast Sample Placement on Existing Trees (UShER). | 2025-10-07 |
| bbmap | public | BBMap is a short read aligner, as well as various other bioinformatic tools. | 2025-10-07 |
| last | public | LAST finds & aligns related regions of sequences. | 2025-10-07 |
| covar | public | Linked-read variant calling tool for wastewater sequencing data | 2025-10-07 |
| csubst | public | Tool for analyzing combinatorial codon substitutions in DNA sequences. | 2025-10-07 |
| orthologer | public | Ortholog detection for comparative genomics and fast functional annotation behind OrthoDB and BUSCO. | 2025-10-07 |
| 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 |
| 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 |
