VRE installed libs and tools

Here is a list of tools and libraries pre-installed into the VRE.

Base components

Type	Library	Description
Python library	black	The uncompromising Python code formatter
Python library	bokeh	Bokeh is an interactive visualization library for modern web browsers
Python library	bqplot	2-D plotting library for Project Jupyter
Python library	cookiecutter	Cookiecutter creates projects from project templates, e.g. Python package projects
Python library	dask	Dask provides advanced parallelism for analytics, enabling performance at scale for the tools you love
Python library	dask-jobqueue	Easily deploy Dask on job queuing systems like PBS
Python library	dask-distributed	Dask.distributed is a lightweight library for distributed computing in Python
Python library	flake8	The modular source code checker
Python library	hvplot	A high-level plotting API for the PyData ecosystem built on HoloViews
Python library	ipywidgets	Interactive Widgets for the Jupyter notebook
Python library	isort	isort your python imports for you so you don't have to
Python library	matplotlib	Matplotlib is a comprehensive library for creating static, animated, and interactive visualizations
Python library	numpy	NumPy is the fundamental package for scientific computing with Python
Python library	numpy-stl	Simple library to make working with STL files (and 3D objects in general) fast and easy
Python library	pandas	pandas is a fast, powerful, flexible and easy to use open source data analysis and manipulation tool
Python library	pandoc	If you need to convert files from one markup format into another, pandoc is your swiss-army knife
Python library	panel	Panel is an open-source Python library that lets you create custom interactive web apps and dashboards by connecting user-defined widgets to plots, images, tables, or text
Python library	papermill	Papermill is a tool for parameterizing and executing Jupyter Notebooks
Python library	plotly	An open-source, interactive graphing library for Python
Python library	pre-commit	A framework for managing and maintaining multi-language pre-commit hooks
Python library	pylint	Python static code analysis tool which looks for programming errors, helps enforcing a coding standard, sniffs for code smells and offers simple refactoring suggestions
Python library	pyscaffold	Template tool for putting up the scaffold of a Python project
Python library	pytest	Simple powerful testing with Python
Python library	pytest-cov	Pytest plugin for measuring coverage
Python library	scikit-image	scikit-image is a collection of algorithms for image processing
Python library	scipy	SciPy is a Python-based ecosystem of software for mathematics, science, and engineering
Python library	tables	PyTables is a package for managing hierarchical datasets and designed to efficiently and easily cope with extremely large amounts of data
Python library	termcolor	ANSII Color formatting for output in terminal
Python library	virtualenv	Virtual Python Environment builder
Python library	voila	Voilà allows you to convert a Jupyter Notebook into an interactive dashboard that allows you to share your work with others
JupyterLab extension	dask	Provides a JupyterLab extension to manage Dask clusters, as well as embed Dask's dashboard plots directly into JupyterLab panes
JupyterLab extension	drawio	A JupyterLab extension for standalone integration of drawio / mxgraph
JupyterLab extension	ipysheet	Spreadsheet in the Jupyter notebook
JupyterLab extension	nb-black	A simple extension for Jupyter Notebook and Jupyter Lab to beautify Python code automatically using Black
JupyterLab extension	plotly	JupyterLab support for plotly library

Machine learning components

Type	Library	Description
Python library	dask-ml	Dask-ML provides scalable machine learning in Python using Dask alongside popular machine learning libraries like Scikit-Learn
Python library	dvc	Open-source Version Control System for Machine Learning Projects
Python library	keras	Keras is a high-level neural networks API, written in Python and capable of running on top of TensorFlow, CNTK, or Theano
Python library	mlflow	Open source platform for the Machine Learning lifecycle
Python library	scikit-learn	Simple and efficient tools for predictive data analysis
Python library	tensorflow	The core open source library to help you develop and train ML models
Python library	torch	An open source machine learning framework that accelerates the path from research prototyping to production deployment
Python library	torchvision	The torchvision package consists of popular datasets, model architectures, and common image transformations for computer vision
Python library	xgboost	XGBoost is an optimized distributed gradient boosting library designed to be highly efficient, flexible and portable
JupyterLab extension	tensorboard	Provides Tensorboard integration into JupyterLab

Earth observation components

Type	Library	Description
Library	GDAL	GDAL (Geospatial Data Abstraction Library) is a library for reading and writing raster and vector geospatial data formats
Library	OTB	Orfeo Toolbox is a library for remote sensing image processing
Library	MicMac	Micmac is the photogrammetry software developped at the IGN (French National Geographic Institute) and ENSG (French national school for geographic sciences)
Library	OpenCV	OpenCV is an open-source library that includes several hundreds of computer vision algorithms
Python library	albumentations	Albumentations is a fast image augmentation library and easy to use wrapper around other libraries (based on OpenCV, imgaug and numpy)
Python library	cars	CARS is a dedicated and open source 3D tool to produce Digital Surface Models from satellite imaging by photogrammetry
Python library	cartopy	Cartopy is a Python package designed for geospatial data processing in order to produce maps and other geospatial data analyses
Python library	eodag	Python framework for searching, aggregating results and downloading remote sensed images
Python library	eodag-cube	eodag-cube is an external package of eodag that is used to access a product’s data, it is going to be used to calculate the NDVI of a product
Python library	fiona	Fiona reads and writes geographic data files with GDAL in a pythonic way
Python library	folium	Manipulate your data in Python, then visualize it in on a Leaflet map via folium
Python library	gdal	Python wrapper for GDAL
Python library	gdal2tiles	A python library for generating map tiles based on gdal2tiles.py script
Python library	geojson	Python bindings and utilities for GeoJSON
Python library	geopandas	GeoPandas extends the datatypes used by pandas to allow spatial operations on geometric types
Python library	glymur	Glymur is an interface to the OpenJPEG library which allows one to read and write JPEG 2000 files from Python
Python library	haversine	Calculate the distance bewteen 2 points on Earth
Python library	ipyleaflet	Interactive maps in the Jupyter notebook
Python library	ipyvolume	Python library to visualize 3d volumes and glyphs (e.g. 3d scatter plots), in the Jupyter notebook, with minimal configuration and effort
Python library	keplergl	This is the kepler.gl jupyter widget, an advanced geospatial visualization tool, to render large-scale interactive maps in Jupyter Notebook
Python library	mapboxgl	MapboxGL plugin for Jupyter Notebooks
Python library	opencv-python	OpenCV-Python is a library of Python bindings designed to solve computer vision problems
Python library	osmium	Python bindings for libosmium, the data processing library for OSM data
Python library	plotly-express	Plotly Express is a terse, consistent, high-level API for rapid data exploration and figure generation
Python library	pygeos	Python wrapper for GEOS into numpy ufuncs
Python library	rasterio	Rasterio reads and writes raster formats and provides a Python API based on Numpy N-dimensional arrays and GeoJSON
Python library	rasterstats	Rasterstats is a Python module for summarizing geospatial raster datasets based on vector geometries
Python library	rio-cogeo	CloudOptimized GeoTIFF (COGEO) creation plugin for rasterio
Python library	rio-tiler	rio-tiler was designed to create slippy map tiles ffrom any raster source supported by Rasterio/GDAL and render these tiles dynamically on a web map
Python library	rtree	R-Tree spatial index for Python GIS
Python library	sat-search	Sat-search is a Python 3 library and a command line tool for discovering and downloading publicly available satellite imagery using STAC compliant API
Python library	shapely	Geometric objects, predicates, and operations
Python library	snappy_esa	Python library to use SNAP Java API
Python library	spatialpandas	pandas and dask extensions for vectorized spatial and geometric operations
Python library	tripy	Tripy is a simple module with one purpose: triangulating polygons
Python library	xarray-spatial	xarray-based spatial analysis tools
JupyterLab extension	eodag-labextension	JupyterLab extension easing eodag search code generation; see also this tutorial
JupyterLab extension	geojson	Render GeoJSON file and structures into JupyterLab
Desktop client	Monteverdi	OTB desktop client
Desktop client	QGis	Open source Geographical Information System (GIS)

AI4GEO components

Type	Library	Description
Python library	ai4geo-pipeline	LoD0 product generation pipeline
Python library	bulldozer	DTM extraction using Drap cloth filter
Python library	dlcooker	DLCooker is a micro-framework that simplifies the training of deep learning algorithms
Python library	labelcooker	An efficient and scalable approach to AI training labels generation from geospatial vector data
Python library	playground-detection-scoring
Python library	regularisation	Simplify and regularize polygon boundaries: regularization process transforms segmentation maps into structured individual building polygons