| Package Name | Access | Summary | Updated |
|---|---|---|---|
| vcf2pandas | public | Package to convert a VCF into a pandas dataframe. | 2025-06-17 |
| lusstr | public | Tool for converting NGS sequence data of forensic STR loci to various annotation styles | 2025-06-17 |
| tasmanian-mismatch | public | Tasmanian tool to analyze mismatches at read and position in high throughput sequencing data. | 2025-06-17 |
| crabs | public | Crabs (Creating Reference databases for Amplicon-Based Sequencing) is a program to download and curate reference databases for eDNA metabarcoding analyses. | 2025-06-17 |
| sphae | public | Phage toolkit | 2025-06-17 |
| mashpit | public | Sketch-based surveillance platform. | 2025-06-16 |
| defense-finder | public | Defense Finder: allow for a systematic search of all known anti-phage systems. | 2025-06-16 |
| el_gato | public | Perform Legionella pneumophila Sequence Based Typing (SBT) from short reads or assemblies. | 2025-06-16 |
| barcodeforge | public | A CLI tool for generating pathogen-specific barcodes for Freyja. | 2025-06-16 |
| seq2squiggle | public | End-to-end simulation of nanopore sequencing signals with feed-forward transformers | 2025-06-16 |
| mappy | public | Minimap2 Python binding | 2025-06-16 |
| dicey | public | In-silico PCR and variant primer design. | 2025-06-15 |
| rcorrector | public | Rcorrector (RNA-seq error CORRECTOR) is a kmer-based error correction method for RNA-seq data. Rcorrector can also be applied to other type of sequencing data where the read coverage is non-uniform, such as single-cell sequencing. | 2025-06-15 |
| minimap2 | public | A versatile pairwise aligner for genomic and spliced nucleotide sequences. | 2025-06-15 |
| abismal | public | abismal is a fast and memory-efficient mapper for short bisulfite sequencing reads. | 2025-06-15 |
| haphic | public | HapHiC: a fast, reference-independent, allele-aware scaffolding tool based on Hi-C data | 2025-06-15 |
| bcftools | public | BCFtools is a set of utilities that manipulate variant calls in the Variant Call Format (VCF) and its binary counterpart BCF. All commands work transparently with both VCFs and BCFs, both uncompressed and BGZF-compressed. Most commands accept VCF, bgzipped VCF and BCF with filetype detected automatically even when streaming from a pipe. Indexed VCF and BCF will work in all situations. Un-indexed VCF and BCF and streams will work in most, but not all situations. | 2025-06-15 |
| fusion-report | public | Tool for parsing outputs from fusion detection tools. Part of the nf-core/rnafusion pipeline. | 2025-06-15 |
| splitcode | public | Flexible parsing, interpretation, and editing of technical sequences. | 2025-06-15 |
| asciigenome | public | Command-line genome browser running from terminal window and solely based on ASCII characters | 2025-06-15 |
| fa-lint | public | A Fasta linter/validator | 2025-06-15 |
| pymlst | public | python Mlst Local Search Tool | 2025-06-15 |
| instanovo | public | InstaNovo enables diffusion-powered de novo peptide sequencing in large scale proteomics experiments. | 2025-06-15 |
| perl-indirect | public | Lexically warn about using the indirect method call syntax. | 2025-06-13 |
| perl-http-message | public | HTTP style message (base class). | 2025-06-13 |
