| Package Name | Access | Summary | Updated |
|---|---|---|---|
| nanocount | public | Transcript abundance estimation from Nanopore *direct-RNA sequencing* datasets | 2025-04-22 |
| tracs | public | Tracs - Fast pairwise transmission inference from single genome and/or metagenomic data | 2025-04-22 |
| nedbit-features-calculator | public | Network diffusion and biology-informed topological features | 2025-04-22 |
| apu-label-propagation | public | Adaptive Positive-Unlabelled label propagation | 2025-04-22 |
| roadies | public | Reference-free Orthology-free Alignment-free DIscordance aware Estimation of Species tree (ROADIES). | 2025-04-22 |
| flexi-formatter | public | Moving flexiplex barcode and UMI to bam tags | 2025-04-22 |
| sainsc | public | Segmentation-free Analysis of In Situ Capture data. | 2025-04-22 |
| vitap | public | Viral Taxonomic Assignment Pipeline | 2025-04-22 |
| ropebwt3 | public | Constructs the FM-index of a large DNA sequence set and searches for matches against the FM-index. | 2025-04-22 |
| sdust | public | Symmetric DUST for finding low-complexity regions in DNA sequences. | 2025-04-22 |
| cryptkeeper | public | A negative design tool for predicting and visualizing undesired gene expression | 2025-04-22 |
| acms | public | Ambivalent Covariance Models (aCMs) are our prototypic suggestion to extend CMs with more than one consensus structure. | 2025-04-22 |
| dingii | public | Computing the Rearrangement Distance of Natural Genomes. | 2025-04-22 |
| rhotermpredict | public | RhoTermPredict (Barrick Lab Fork) | 2025-04-22 |
| promotercalculator | public | Promoter-Calculator (Barrick Lab Fork) | 2025-04-22 |
| ncbi-stxtyper | public | StxTyper identifies and types Stx operons from assembled genomic sequence. | 2025-04-22 |
| cytotrace2-python | public | CytoTRACE 2 is an interpretable AI method for predicting cellular potency and absolute developmental potential from scRNA-seq data. | 2025-04-22 |
| phylodeep | public | Deep-learning parameter estimation and model selection from phylogenetic trees. | 2025-04-22 |
| bcgtree | public | Automatized phylogenetic tree building from bacterial core genomes | 2025-04-22 |
| kin | public | A tool to estimate pairwise relatedness from ancient DNA, taking in account contamination, ROH, ascertainment bias. | 2025-04-22 |
| phylodeep_data_bdei | public | Package containing data for the phylodeep package. | 2025-04-22 |
| phylodeep_data_bd | public | Package containing data for the phylodeep package. | 2025-04-22 |
| phylodeep_data_bdss | public | Package containing data for the phylodeep package. | 2025-04-22 |
| graphbin2 | public | GraphBin2: Refined and Overlapped Binning of Metagenomic Contigs Using Assembly Graphs | 2025-04-22 |
| radtk | public | A collection of tools for working with RAD files. | 2025-04-22 |
