| Package Name | Access | Summary | Updated |
|---|---|---|---|
| yame | public | YAME: Yet Another Methylation Extractor. | 2025-07-09 |
| iqtree | public | Efficient phylogenomic software by maximum likelihood. | 2025-07-09 |
| admixtools | public | ADMIXTOOLS (Patterson et al. 2012) is a software package that supports formal tests of whether admixture occurred, and makes it possible to infer admixture proportions and dates. | 2025-07-09 |
| ngmlr | public | ngmlr is a long-read mapper designed to align PacBio or Oxford Nanopore reads to a reference genome and optimized for structural variation detection | 2025-07-08 |
| n50 | public | A command-line tool to calculate the N50 value of a set of sequences and other utilities. | 2025-07-08 |
| sniffles | public | Sniffles is a structural variation caller using third generation sequencing (PacBio or Oxford Nanopore). | 2025-07-08 |
| hifiasm_meta | public | Metagenome assembler for Hifi reads, based on hifiasm. | 2025-07-08 |
| pyslow5 | public | slow5lib Python binding | 2025-07-08 |
| duphist | public | DupHIST: A toolkit for duplication history inference via substitution-based timeframe | 2025-07-08 |
| nf-core | public | Python package with helper tools for the nf-core community. | 2025-07-08 |
| snap | public | Semi-HMM-based Nucleic Acid Parser - a gene prediction tool. | 2025-07-08 |
| fusioncatcher-seqtk | public | This is modified Seqtk version required for FusionCatcher. | 2025-07-08 |
| mantis-msi2 | public | MANTIS2 is a program developed for detecting microsatellite instability from paired-end BAM files | 2025-07-08 |
| r-rphast | public | Provides an R interface to the 'PHAST'(<http://compgen.cshl.edu/phast/>) software (Phylogenetic Analysis with Space/Time Models). It can be used for many types of analysis in comparative and evolutionary genomics, such as estimating models of evolution from sequence data, scoring alignments for conservation or acceleration, and predicting elements based on conservation or custom phylogenetic hidden Markov models. It can also perform many basic operations on multiple sequence alignments and phylogenetic trees. | 2025-07-08 |
| fqtools | public | An efficient FASTQ manipulation suite. | 2025-07-08 |
| tiberius | public | Tiberius is a deep learning gene-finder. | 2025-07-08 |
| gaas | public | Suite of tools related to Genome Assembly Annotation Service tasks at NBIS. | 2025-07-08 |
| exonerate | public | Exonerate - A generic tool for pairwise sequence comparison / alignment | 2025-07-08 |
| fwdpp | public | A C++ template library for forward-time population genetic simulation. | 2025-07-08 |
| nmslib-metabrainz | public | Non-Metric Space Library (NMSLIB). | 2025-07-07 |
| metasbt | public | Microbial genomes characterization with Sequence Bloom Trees. | 2025-07-07 |
| saffrontree | public | No Summary | 2025-07-07 |
| ncls | public | A fast interval tree-like implementation in C, wrapped for the Python ecosystem. Basically a static interval-tree that is silly fast for both construction and lookups. | 2025-07-07 |
| newmap | public | Tool for creating mappability data for reference sequences. | 2025-07-07 |
| sibeliaz | public | A fast whole-genome aligner based on de Bruijn graphs. | 2025-07-07 |
