JupyterHub: A multi-user server for Jupyter notebooks

The systemdspawner enables JupyterHub to spawn single-user notebook servers using systemd.

This package provides a spawner for Jupyterhub to spawn notebooks using batch resource managers.

Ray is a unified framework for scaling AI and Python applications. Ray consists of a core distributed runtime and a set of AI libraries for simplifying ML compute. These are the provided Ray AI libraries:

• Data: Scalable datasets for ML;

• Train: Distributed training;

• Tune: Scalable hyperparameter tuning;

• RLlib: Scalable reinforcement learning;

• Serve: Scalable and programmable serving.

This is a Python library for time series data mining. It provides tools for time series classification, clustering and forecasting.

Ray is a unified framework for scaling AI and Python applications. Ray consists of a core distributed runtime and a set of AI libraries for simplifying ML compute. These are the provided Ray AI libraries:

• Data: Scalable datasets for ML;

• Train: Distributed training;

• Tune: Scalable hyperparameter tuning;

• RLlib: Scalable reinforcement learning;

• Serve: Scalable and programmable serving.

Haiku is a simple neural network library for JAX. It is developed by some of the authors of Sonnet, a neural network library for TensorFlow.

Keras is a deep learning API written in Python, running on top of the machine learning platform TensorFlow. It was developed with a focus on enabling fast experimentation and providing a delightful developer experience.

TensorStore is a C++ and Python software library designed for storage and manipulation of large multi-dimensional arrays that:

• Provides advanced, fully composable indexing operations and virtual views.

• Provides a uniform API for reading and writing multiple array formats, including zarr and N5.

• Natively supports multiple storage systems, such as local and network filesystems, Google Cloud Storage, Amazon S3-compatible object stores, HTTP servers, and in-memory storage.

• Offers an asynchronous API to enable high-throughput access even to high-latency remote storage.

• Supports read caching and transactions, with strong atomicity, isolation, consistency, and durability (ACID) guarantees.

• Supports safe, efficient access from multiple processes and machines via optimistic concurrency.

Orbax is a namespace providing common utility libraries for JAX users. Orbax also includes a serialization library for JAX users, enabling the exporting of JAX models to the TensorFlow SavedModel format.

Flax is a neural network library for JAX that is designed for flexibility.

pyRiemann is a Python machine learning package based on scikit-learn API. It provides a high-level interface for processing and classification of real (resp. complex)-valued multivariate data through the Riemannian geometry of symmetric (resp. Hermitian) positive definite (SPD) (resp. HPD) matrices.

AlphaFold is an AI system developed by DeepMind that predicts a protein’s 3D structure from its amino acid sequence. It regularly achieves accuracy competitive with experiment.

Equinox is a comprehensive JAX library that provides a wide range of tools and features not found in core JAX, including neural networks with PyTorch-like syntax, filtered APIs for transformations, PyTree manipulation routines, and advanced features like runtime errors.

Grace is a 2D plotting tool for the X Window System. It has a Motif-based GUI and a scripting language that includes curve fitting, analysis, and export capabilities.

STIR is an object-oriented framework for tomographic image reconstruction, with an emphasis on iterative reconstruction in PET and SPECT. This package includes the C++ core and Python bindings.

MVAPICH (pronounced as “em-vah-pich”) is an open-source MPI software to exploit the novel features and mechanisms of high-performance networking technologies (InfiniBand, iWARP, RDMA over Converged Enhanced Ethernet (RoCE v1 and v2), Slingshot 10, and Rockport Networks) and deliver best performance and scalability to MPI applications. MVAPICH 4.1 has support for the Cray Slingshot 11, Cornelis OPX, and Intel PSM3 interconnects through the OFI libfabric library, and for the UCX communication library.

MVAPICH2 (pronounced as “em-vah-pich 2”) is an open-source MPI software to exploit the novel features and mechanisms of high-performance networking technologies (InfiniBand, iWARP, RDMA over Converged Enhanced Ethernet (RoCE v1 and v2), Slingshot 10, and Rockport Networks) and deliver best performance and scalability to MPI applications.

NeuroImaging Workflows provides processing tools for magnetic resonance images of the brain.

CiftiLib is a C++ library for CIFTI-2 file reading/writing. It additionally supports CIFTI-1 files, and supports both on-disk and in-memory access. It also provides C++ code for reading and writing generic NIfTI-1 and NIfTI-2 files.

CIFTI (Connectivity Informatics Technology Initiative) standardizes file formats for the storage of connectivity data. These formats are developed by the Human Connectome Project and other interested parties.

See http://www.nitrc.org/projects/cifti/ for more information.

This package provides Python tools for working with the BIDS schema.

NiFreeze is a flexible framework for volume-to-volume motion estimation and correction in d/fMRI and PET, and eddy-current-derived distortion estimation in dMRI.

Nilearn enables approachable and versatile analyses of brain volumes and surfaces. It provides statistical and machine-learning tools, with instructive documentation & open community.

NARPS Open Pipelines is a project aimed at reproducing the 70 pipelines from the NARPS study (Botvinik-Nezer et al., 2020) and sharing them as an open resource for the community. It uses Nipype for workflow management and provides templates to facilitate the reproduction of neuroimaging analyses.