| Package Name | Access | Summary | Updated |
|---|---|---|---|
| pyrle | public | Genomic Rle-objects for Python | 2025-09-04 |
| kraken2 | public | Kraken2 is a system for assigning taxonomic labels to short DNA sequences, usually obtained through metagenomic studies. | 2025-09-04 |
| goleft | public | goleft is a collection of bioinformatics tools distributed under MIT license in a single static binary | 2025-09-04 |
| gridss | public | GRIDSS: the Genomic Rearrangement IDentification Software Suite | 2025-09-04 |
| grabix | public | a wee tool for random access into BGZF files. | 2025-09-04 |
| umis | public | Tools for processing UMI RNA-tag data | 2025-09-04 |
| atropos | public | trim adapters from high-throughput sequencing reads | 2025-09-04 |
| hmmcopy | public | C++ based programs for analyzing BAM files and preparing read counts -- used with bioconductor-hmmcopy | 2025-09-04 |
| mawk | public | mawk is an interpreter for the AWK Programming Language. | 2025-09-04 |
| pod5 | public | Oxford Nanopore Technologies Pod5 File Format Python API and Tools. | 2025-09-04 |
| decenttree | public | Scalable Neighbour-Joining and related algorithms for phylogenetic inference | 2025-09-04 |
| svision-pro | public | Neural-network-based long-read SV caller. | 2025-09-04 |
| haploclique | public | Viral quasispecies assembly via maximal clique finding. A method to reconstruct viral haplotypes and detect large insertions and deletions from NGS data. | 2025-09-04 |
| craq | public | Pinpoint assembly errors for genomic assessing and correcting. | 2025-09-04 |
| zdb | public | zDB is both a bacterial comparative genomics pipeline and a tool to visualize the results | 2025-09-04 |
| padloc | public | Locate antiviral defence systems in prokaryotic genomes | 2025-09-04 |
| mitosalt | public | MitoSAlt is a pipeline to identify large deletions and duplications in human and mouse mitochondrial genomes from next generation whole genome/exome sequencing data. The pipeline is capable of analyzing any circular genome in principle, as long as a proper configuration file is provided. | 2025-09-04 |
| plmc | public | Inference of couplings in proteins and RNAs from sequence variation. | 2025-09-04 |
| r-classdiscovery | public | Defines the classes used for "class discovery" problems in the OOMPA project (<http://oompa.r-forge.r-project.org/>). Class discovery primarily consists of unsupervised clustering methods with attempts to assess their statistical significance. | 2025-09-04 |
| eva-sub-cli | public | EVA Submission Command Line Interface. | 2025-09-04 |
| lib-pod5 | public | Python bindings for the POD5 file format. | 2025-09-04 |
| snakefmt | public | The uncompromising Snakemake code formatter. | 2025-09-04 |
| nanopolish | public | Signal-level algorithms for MinION data. | 2025-09-04 |
| fasttree | public | FastTree infers approximately-maximum-likelihood phylogenetic trees from alignments of nucleotide or protein sequences. | 2025-09-04 |
| r-chromvarmotifs | public | Stores several motifs as PWMatrixList objects for use in R with packages like motifmatchr and chromVAR. | 2025-09-03 |
