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

openpmd-api

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

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.

scippnexus

h5py-like utility for NeXus files with seamless scipp integration

cooler

A cool place to store your Hi-C

deepdish

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

legend-pydataobj

LEGEND Python Data Objects

jupyterlab-h5web

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

swiftsimio

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

spec2nexus

Converts SPEC data files and scans into NeXus HDF5 files

adios2

Next generation of ADIOS developed in the Exascale Computing Program

nxstools

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

discretisedfield

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

pyfieldml

A modern pure-Python implementation of FieldML 0.5: full evaluation engine, interop bridges (meshio/PyVista/XDMF/scikit-fem), curated biomechanics model zoo

threedigrid

grid administration for 3Di models

h5io-browser

Easy navigation and data storage for HDF5

pycgns

A Python package for CGNS