| Package Name | Access | Summary | Updated |
|---|---|---|---|
| repeatmasker | public | RepeatMasker is a program that screens DNA sequences for interspersed repeats and low complexity DNA sequences. | 2025-08-28 |
| gubbins | public | Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins. | 2025-08-28 |
| pysradb | public | Python package for retrieving metadata and downloading datasets from SRA/ENA/GEO | 2025-08-27 |
| jcvi | public | Python utility libraries on genome assembly, annotation, and comparative genomics. | 2025-08-27 |
| openms | public | OpenMS is an open-source software C++ library for LC-MS data management and analyses. | 2025-08-24 |
| bioconductor-tfbstools | public | Software Package for Transcription Factor Binding Site (TFBS) Analysis. | 2025-08-22 |
| bioconductor-cner | public | CNE Detection and Visualization. | 2025-08-22 |
| alfred | public | BAM alignment statistics, feature counting and feature annotation | 2025-08-22 |
| skesa | public | Strategic Kmer Extension for Scrupulous Assemblies & Sequence Assembly Using Target Enrichment | 2025-08-21 |
| bioconductor-chromvar | public | Chromatin Variation Across Regions. | 2025-08-21 |
| macs2 | public | Model Based Analysis for ChIP-Seq data | 2025-08-21 |
| btrim | public | This tool is made to remove "tips" (short dead ends) from a compacted de Bruijn graph and more generally to remove sequencing errors. Used in Bcool a short read corrector (https://arxiv.org/abs/1711.03336) | 2025-08-21 |
| disco | public | Multi-threaded Distributed Memory Overlap-Layout-Consensus (OLC) Metagenome Assembler. | 2025-08-21 |
| sparseassembler | public | No Summary | 2025-08-21 |
| dbg2olc | public | Efficient Assembly of Large Genomes Using Long Erroneous Reads of the Third Generation Sequencing Technologies | 2025-08-21 |
| assemblyutility | public | No Summary | 2025-08-21 |
| sparc | public | No Summary | 2025-08-21 |
| perl-findbin | public | Locate directory of original perl script. | 2025-08-20 |
| augustus | public | AUGUSTUS is a gene prediction program for eukaryotes written by Mario Stanke and Oliver Keller. It can be used as an ab initio program, which means it bases its prediction purely on the sequence. AUGUSTUS may also incorporate hints on the gene structure coming from extrinsic sources such as EST, MS/MS, protein alignments and synthenic genomic alignments. | 2025-08-20 |
| perl-bio-phylo | public | An object-oriented Perl toolkit for analyzing and manipulating phyloinformatic data. | 2025-08-20 |
| perl-bio-db-hts | public | Read files using HTSlib including BAM/CRAM, Tabix and BCF database files | 2025-08-20 |
| paml | public | A package of programs for phylogenetic analyses of DNA or protein sequences using maximum likelihood. | 2025-08-20 |
| bioconductor-dupradar | public | Assessment of duplication rates in RNA-Seq datasets | 2025-08-20 |
| ushuffle | public | uShuffle---a useful tool for shuffling biological sequences while preserving the k-let counts | 2025-08-20 |
| samblaster | public | Mark duplicates in and extract discordant and split reads from SAM files. | 2025-08-19 |
