| Package Name | Access | Summary | Updated |
|---|---|---|---|
| miniprot | public | Miniprot aligns a protein sequence against a genome with affine gap penalty, splicing and frameshift. It is primarily intended for annotating protein-coding genes in a new species using known genes from other species. | 2025-07-13 |
| syny | public | Genome collinearity inferences | 2025-07-11 |
| breakfast | public | breakfast: fast putative outbreak cluster and infection chain detection using SNPs. | 2025-07-10 |
| gencove | public | Gencove is a high-throughput, cost-effective platform for genome sequencing and analysis. This command-line interface can be used to easily access the Gencove API. | 2025-07-10 |
| fmlrc2 | public | A rust implementation of fmlrc with faster run times. | 2025-07-10 |
| ropebwt2 | public | Incremental construction of FM-index for DNA sequences | 2025-07-10 |
| d4tools | public | The D4 command line utility program | 2025-07-10 |
| slivar | public | filter/annotate variants in VCF/BCF format with simple expressions. | 2025-07-10 |
| somalier | public | Fast sample-swap and relatedness checks on BAMs/CRAMs/VCFs/GVCFs. | 2025-07-09 |
| gotree | public | gotree is a set of command line tools to manipulate phylogenetic trees. | 2025-07-09 |
| seqtk | public | Seqtk is a fast and lightweight tool for processing sequences in the FASTA or FASTQ format | 2025-07-09 |
| multitax | public | Python package to obtain, parse and explore biological taxonomies. | 2025-07-09 |
| busco | public | Assessment of assembly completeness using Universal Single Copy Orthologs. | 2025-07-09 |
| barcode-validator | public | A python package for structural and taxonomic validation of DNA barcode data | 2025-07-09 |
| pia | public | PIA is a toolbox for MS based protein inference and identification analysis. | 2025-07-09 |
| cerberus-x | public | Versatile Functional Ontology Assignments via Hidden Markov Model (HMM) searching with environmental focus of shotgun 'omics data. | 2025-07-09 |
| perl-io-zlib | public | IO:: style interface to Compress::Zlib | 2025-07-09 |
| 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 |
