Hdf5 Python Packages

h5netcdf

Pythonic interface to netCDF4 via h5py

numpydantic

Type annotations for specifying, validating, and serializing arrays with arbitrary backends in Pydantic (and beyond)

hdmf

The Hierarchical Data Modeling Framework

awkward0

Manipulate arrays of complex data structures as easily as Numpy.

pynwb

A Python API for working with Neurodata stored in the NWB Format

h5grove

h5grove is a Python package that provides utilities to design backends serving HDF5 file content: attributes, metadata and data.

silx

silx toolkit

visidata

A terminal spreadsheet multitool for discovering and arranging data

scitex-io

Universal scientific data I/O with plugin registry — save/load 30+ formats with one API. Part of SciTeX.

openpmd-api

:floppy_disk: C++ & Python API for Scientific I/O

scippnexus

h5py-like utility for NeXus files with seamless scipp integration

deepdish

Flexible HDF5 saving/loading and other data science tools from the University of Chicago

cooler

A cool place to store your Hi-C

legend-pydataobj

LEGEND Python Data Objects

swiftsimio

Python library for reading SWIFT data. Uses unyt and h5py.

spec2nexus

Converts SPEC data files and scans into NeXus HDF5 files

legend-lh5io

LEGEND HDF5 I/O in Python

adios2

Next generation of ADIOS developed in the Exascale Computing Program

jupyterlab-h5web

A JupyterLab extension to explore and visualize HDF5 file contents. Based on https://github.com/silx-kit/h5web.

discretisedfield

Python package for the analysis and visualisation of finite-difference fields.

nxstools

NeXus command-line tools for setting NeXus tango servers and preparing their configurtation

accelerometry-annotator

Web-based tool for visualizing and annotating accelerometry data. Supports collaborative labeling of activity segments in large time-series recordings. Built with Panel and Bokeh. Docs: https://tavoloperuno.github.io/py_visualize_accelerometry/ | Demo: https://tavoloperuno-accelerometry-viewer-demo.hf.space/

pycgns

A Python package for CGNS

h5io-browser

Easy navigation and data storage for HDF5