| Package Name | Access | Summary | Updated |
|---|---|---|---|
| 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 |
| 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 |
| coreprofiler | public | CoreProfiler, a robust and integrable cgMLST software. | 2025-09-03 |
| pyfaidx | public | pyfaidx: efficient pythonic random access to fasta subsequences | 2025-09-03 |
| chewbbaca | public | A complete suite for gene-by-gene schema creation and strain identification. | 2025-09-03 |
| dajin2 | public | One-step genotyping tools for targeted long-read sequencing. | 2025-09-03 |
| scglue | public | Graph-linked unified embedding for unpaired single-cell multi-omics data integration | 2025-09-03 |
| mmlong2-lite | public | Lightweight workflow for microbial genome recovery using either Nanopore or PacBio HiFi reads | 2025-09-03 |
| perl-bio-easel | public | Perl modules and scripts for interfacing with Sean Eddy's C easel sequence analysis library using Perl's Inline. | 2025-09-03 |
| biobb_common | public | Biobb_common is the base package required to use the biobb packages. | 2025-09-03 |
| cycle_finder | public | A de novo analysis tool for tandem and interspersed repeats based on cycle-finding | 2025-09-03 |
| probeit | public | Probeit: a probe designer for detecting and genotyping pathogen!!! | 2025-09-02 |
| genomedata | public | Tools for accessing large amounts of genomic data. | 2025-09-02 |
| quip | public | Aggressive compression of FASTQ and SAM/BAM files. | 2025-09-02 |
| pureclip | public | PureCLIP is a tool to detect protein-RNA interaction footprints from single-nucleotide CLIP-seq data, such as iCLIP and eCLIP. | 2025-09-02 |
| bacpage | public | An easy-to-use pipeline for the assembly and analysis of bacterial genomes. | 2025-09-02 |
