| Package Name | Access | Summary | Updated |
|---|---|---|---|
| bioconductor-rbowtie2 | public | An R Wrapper for Bowtie2 and AdapterRemoval | 2025-07-17 |
| minisplice | public | minisplice is a command-line tool to estimate the odds-ratio score of canonical donor (GT) and acceptor (AG) splice sites. It is intended to be used with miniprot or minimap2 for improving alignment accuracy especially for distant homologs.. | 2025-07-17 |
| minigraph | public | Proof-of-concept seq-to-graph mapper and graph generator | 2025-07-17 |
| cdskit | public | A toolkit for processing protein-coding sequences (CDS). | 2025-07-17 |
| isorefiner | public | A refinement tool to identify exon-intron structures of transcript (RNA) isoforms using long reads | 2025-07-17 |
| gcen | public | GCEN: an easy-to-use toolkit for Gene Co-Expression Network analysis and lncRNAs annotation | 2025-07-17 |
| dna-nn | public | Model and predict short DNA sequence features with neural networks. | 2025-07-17 |
| prodigal | public | Prodigal (Prokaryotic Dynamic Programming Genefinding Algorithm) is a microbial (bacterial and archaeal) gene finding program | 2025-07-17 |
| perl-experimental | public | Experimental features made easy | 2025-07-17 |
| phlame | public | Novelty-aware intraspecies profiling of metagenome samples. | 2025-07-17 |
| mumemto | public | Finding maximal unique matches across pangenomes. | 2025-07-16 |
| transdecoder | public | TransDecoder identifies candidate coding regions within transcript sequences, such as those generated by de novo RNA-Seq transcript assembly using Trinity, or constructed based on RNA-Seq alignments to the genome using Tophat and Cufflinks. | 2025-07-16 |
| spatialleiden | public | Implementation of multiplex Leiden for analysis of spatial omics data. | 2025-07-16 |
| slclust | public | A utility that performs single-linkage clustering with the option of applying a Jaccard similarity coefficient to break weakly bound clusters into distinct clusters. | 2025-07-16 |
| crossfilt | public | Tools to filter reads causing alignment bias in cross-species genomic comparisons. | 2025-07-16 |
| seabreeze-genomics | public | Analyzing Structural Variation Between Bacterial Genome Assemblies. | 2025-07-16 |
| tn93 | public | This is a simple program meant to compute pairwise distances between aligned nucleotide sequences in sequential FASTA format using the Tamura Nei 93 distance. | 2025-07-16 |
| star-fusion | public | STAR-Fusion fusion variant caller. All dependencies required to run FusionInspector and FusionAnnotator are included. | 2025-07-16 |
| minimod | public | A bioinformatics tool for viewing and calculating base modification frequencies from BAM files | 2025-07-16 |
| cressent | public | A comprehensive toolkit for ssDNA virus analysis | 2025-07-16 |
| atlas | public | ATLAS: Analysis Tools for Ancient and Low-depth Samples | 2025-07-16 |
| methylartist | public | Tools for parsing and plotting nanopore methylation data. | 2025-07-16 |
| searchgui | public | User-friendly graphical tool for using proteomics identification search engines. | 2025-07-16 |
| scoop | public | Scalable COncurrent Operations in Python. | 2025-07-16 |
| ggcat | public | Compacted and colored de Bruijn graph construction and querying. | 2025-07-16 |
