| Package Name | Access | Summary | Updated |
|---|---|---|---|
| metacompass | public | MetaCompass: Reference-guided Assembly of Metagenomes. | 2025-09-11 |
| r-epianeufinder | public | R package to detect breakpoints and assign somies to scATAC-seq data. | 2025-09-04 |
| r-atacnv | public | This is the R package implementation for AtaCNA, a CNA detection algorithm for scATAC-seq datasets. | 2025-09-04 |
| r-simatac | public | simATAC is a framework provided as an R package that generates a single-cell Assay for Transposase-Accessible Chromatin sequencing (scATAC-seq) count matrix, highly resembling real scATAC-seq datasets in library size, sparsity, and averaged chromatin accessibility signals. | 2025-09-03 |
| toga | public | TOGA is a new method that integrates gene annotation, inferring orthologs and classifying genes as intact or lost. | 2025-08-30 |
| compass-cplex | public | In-Silico Modeling of Metabolic Heterogeneity using Single-Cell Transcriptomes. | 2025-08-27 |
| gsl | public | GNU Scientific Library | 2025-08-04 |
| bioemu | public | Inference code for scalable emulation of protein equilibrium ensembles with generative deep learning. | 2025-07-29 |
| abinit | public | ABINIT is an atomic-scale simulation software suite. | 2025-07-29 |
| pytorch | public | Tensors and Dynamic neural networks in Python with strong GPU acceleration | 2025-07-25 |
| openmpi | public | Message Passing Interface | 2025-07-25 |
| isonclust3 | public | De novo clustering of long transcript reads into genes. | 2025-07-07 |
| npinv | public | an accurate tool for detecting and genotyping inversion using multiple alignment long reads | 2025-06-12 |
| qupath | public | QuPath is open source software for bioimage analysis. | 2025-05-11 |
| hcc-jupyter-kernels | public | Jupyter kernelspec files for HCC resources | 2025-04-15 |
| julia | public | A high-performance dynamic programming language for data science | 2025-04-13 |
| sequeltools | public | A suite of tools for working with PacBio Sequel raw sequence data. | 2025-03-26 |
| deepmriprep | public | Neural network-based preprocessing of MRI data. Prepping brain images in seconds. | 2025-03-25 |
| torchreg | public | Lightweight image registration library using PyTorch | 2025-03-25 |
| deepbet | public | Fast brain extraction using neural networks | 2025-03-25 |
| fill-voids | public | Fill voids in 3D binary images fast. | 2025-03-25 |
| fpocket | public | fpocket is a very fast open source protein pocket detection algorithm based on Voronoi tessellation. | 2025-03-25 |
| sequencetubemap | public | Displays multiple genomic sequences in the form of a tube map. | 2025-03-25 |
| lumpy | public | The LumPy toolset provides a proof of concept for lumping for DBMF/PA/AME equations for contact processes on complex networks. | 2025-03-25 |
| vcfstats | public | Powerful statistics for VCF files | 2025-03-25 |
