| Package Name | Access | Summary | Updated |
|---|---|---|---|
| parsnp | public | Parsnp is a command-line-tool for efficient microbial core genome alignment and SNP detection. | 2025-04-29 |
| sigprofilerplotting | public | SigProfiler plotting tool. | 2025-04-29 |
| pastml | public | Ancestral character reconstruction and visualisation for rooted phylogenetic trees. | 2025-04-29 |
| perl-file-fetch | public | Generic file fetching code. | 2025-04-29 |
| vamb | public | Variational autoencoder for metagenomic binning. | 2025-04-29 |
| bioconductor-singler | public | Reference-Based Single-Cell RNA-Seq Annotation | 2025-04-29 |
| bioconductor-hibag | public | HLA Genotype Imputation with Attribute Bagging | 2025-04-29 |
| bioconductor-seqtools | public | Analysis of nucleotide, sequence and quality content on fastq files | 2025-04-29 |
| gatk4 | public | Genome Analysis Toolkit (GATK4) | 2025-04-29 |
| gatk4-spark | public | Genome Analysis Toolkit (GATK4) | 2025-04-29 |
| nim-abif | public | Parse ABIF files from the command line | 2025-04-29 |
| micom | public | Microbial community modeling based on cobrapy. | 2025-04-29 |
| reframed | public | Metabolic modeling package. | 2025-04-29 |
| plasmidcommunity | public | Klebsiella pneumoniae Plasmid Classification, Assignment, and Transmission Risk Prediction | 2025-04-29 |
| pandaseq | public | No Summary | 2025-04-29 |
| fastq-filter | public | A fast FASTQ filter program. | 2025-04-29 |
| quantms-rescoring | public | PSM rescoring python package with scripts and helpers for the quantms workflow | 2025-04-29 |
| gecode | public | Generic constraint development environment | 2025-04-29 |
| gambitcore | public | Tool for rapid taxonomic identification of microbial pathogens | 2025-04-29 |
| taxonkit | public | A Cross-platform and Efficient NCBI Taxonomy Toolkit | 2025-04-29 |
| parascopy | public | Calling paralog-specific copy number and sequence variants in duplicated genes using short-read whole-genome sequencing. | 2025-04-28 |
| checkqc | public | A simple program to parse Illumina NGS data and check it for quality criteria. | 2025-04-28 |
| pepsirf | public | Peptide-based Serological Immune Response Framework. | 2025-04-27 |
| ice-cream | public | ICEcream: Integrative and Conjugative Elements Classification and gRaphical gEne Arrangement Method. | 2025-04-27 |
| tidyp | public | Program for cleaning up and validating HTML | 2025-04-27 |
