| Package Name | Access | Summary | Updated |
|---|---|---|---|
| ndex2 | public | Nice CX Python includes a client and a data model. | 2025-07-23 |
| ervmancer | public | Quantifies HERV short read RNA sequencing expression data | 2025-07-23 |
| sylph-tax | public | Integrating taxonomic information into the sylph metagenome profiler. | 2025-07-23 |
| biocode | public | Bioinformatics code libraries and scripts. | 2025-07-22 |
| rsidx | public | Library for indexing VCF files for random access searches by rsID. | 2025-07-22 |
| alen | public | Simple terminal sequence alignment viewer | 2025-07-22 |
| crocodeel | public | CroCoDeEL is a tool that detects cross-sample contamination in shotgun metagenomic data | 2025-07-22 |
| agat | public | Another Gff Analysis Toolkit (AGAT). Suite of tools to handle gene annotations in any GTF/GFF format. | 2025-07-22 |
| gpsw | public | GPSW is a tool for analysing Global Protein Stability Profiling data. | 2025-07-22 |
| bigwig-nim | public | Command-line querying+conversion of bigwigs | 2025-07-22 |
| goalign | public | goalign is a set of command line tools to manipulate multiple alignments | 2025-07-22 |
| r-tidyheatmap | public | This is a tidy implementation for heatmap. At the moment it is based on the (great) package 'ComplexHeatmap'. The goal of this package is to interface a tidy data frame with this powerful tool. Some of the advantages are: Row and/or columns colour annotations are easy to integrate just specifying one parameter (column names). Custom grouping of rows is easy to specify providing a grouped tbl. For example: df %>% group_by(...). Labels size adjusted by row and column total number. Default use of Brewer and Viridis palettes. | 2025-07-22 |
| vcfbub | public | Popping bubbles in vg deconstruct VCFs | 2025-07-22 |
| parasail-python | public | Python bindings for the parasail C library containing implementations of pairwise sequence alignment algorithms. | 2025-07-22 |
| pantax | public | Strain-level metagenomic profiling using pangenome graphs with PanTax | 2025-07-22 |
| pilea | public | Pilea: profiling bacterial growth dynamics from metagenomes with sketching | 2025-07-22 |
| svtopo | public | Complex structural variant visualization for HiFi sequencing data: extraction tool | 2025-07-22 |
| nextpolish | public | Fast and accurately polish the genome generated by long reads | 2025-07-22 |
| r-bpcells | public | Efficient operations for single cell ATAC-seq fragments and RNA counts matrices. Interoperable with standard file formats, and introduces efficient bit-packed formats that allow large storage savings and increased read speeds. | 2025-07-22 |
| svtopovz | public | Complex structural variant visualization for HiFi sequencing data: plotting tool. | 2025-07-22 |
| cooler | public | Sparse binary format for genomic interaction matrices. | 2025-07-22 |
| nextpolish2 | public | Repeat-aware polishing genomes assembled using HiFi long reads. | 2025-07-21 |
| bbmap | public | BBMap is a short read aligner, as well as various other bioinformatic tools. | 2025-07-21 |
| bio-unicorn | public | A tool for computing statistics on short read alignments. | 2025-07-21 |
| aster | public | Accurate Species Tree EstimatoR series; a family of optimation algorithms for species tree inference implemented in C++. | 2025-07-21 |
