| Package Name | Access | Summary | Updated |
|---|---|---|---|
| metaphlan | public | Metagenomic Phylogenetic Analysis. | 2025-06-04 |
| pretextsnapshot | public | Commandline image generator for Pretext Hi-C genome contact maps. | 2025-06-04 |
| bowtie2 | public | A fast and sensitive gapped read aligner. | 2025-06-03 |
| r-tmae | public | Tests and visualizations for mono-allelicly expressed variants. | 2025-06-03 |
| bcftools-liftover-plugin | public | Tools to work with GWAS-VCF summary statistics files (liftover plugin only) | 2025-06-03 |
| k8 | public | Lightweight JavaScript shell based on Google's V8 JavaScript engine | 2025-06-03 |
| quota_anchor | public | Strand and WGD aware syntenic gene identification | 2025-06-03 |
| iced | public | The python module iced implements the ICE normalization of hic data. | 2025-06-03 |
| rustybam | public | Mitchell Vollger's bioinformatics rust utilities. | 2025-06-03 |
| vqbg | public | De Novo Reconstruction of Viral Quasispecies from Bubble Graph | 2025-06-03 |
| rucs | public | RUCS is a bioinformatics tool developed to ease the task of designing new primers. | 2025-06-03 |
| riboloco | public | Riboseq analysis. | 2025-06-03 |
| transit | public | TRANSIT | 2025-06-02 |
| uniprot-id-mapper | public | A Python wrapper for the UniProt Mapping RESTful API. | 2025-06-02 |
| r-tinc | public | TINC is a package that implements algorithms to determine the contamination of a bulk sequencing sample in the context of cancer studies (matched tumour/ normal). The contamination estimated by TINC can be either due to normal cells sampled in the tumour biopsy or to tumour cells in the normal biopsy. The former case is traditionally called purity, or cellularity, and a number of tools exist to estimate it. The latter case is less common, and that is the main reason TINC has been developed. For this reason, the package takes name TINC, Tumour-in-Normal contamination. TINC is part of the evoverse, a package that gathers multiple R packages to implement Cancer Evolution analyses. | 2025-06-02 |
| longtrack | public | Track FMT strains using long-read metagenomic assemblies. | 2025-06-02 |
| freebayes | public | Bayesian haplotype-based polymorphism discovery and genotyping. | 2025-06-02 |
| diatracer | public | A diaPASEF spectrum-centric analysis tool | 2025-06-02 |
| fgsmk | public | Supporting functions for running Snakemake workflows. | 2025-06-02 |
| pytwobit | public | A fast reader for local or remote UCSC twobit sequence files. | 2025-06-02 |
| pdbx | public | A parser module in python for structures of the protein data bank in the mmcif format | 2025-06-02 |
| vafator | public | VAFator annotates the variants in a VCF file with technical annotations extracted from one or more BAM alignment files. We implement a set of basic coverage annotations and also more sophisticated published annotations used to assess the quality of every variant call. | 2025-06-02 |
| mmcif | public | mmCIF Core Access Library | 2025-06-02 |
| bioconductor-dirichletmultinomial | public | Dirichlet-Multinomial Mixture Model Machine Learning for Microbiome Data | 2025-06-02 |
| vcfx | public | VCFX: A Comprehensive VCF Manipulation Toolkit | 2025-06-02 |
