Python 3d-genome-visualization Resources

FlashTorch A Python visualization toolkit, built with PyTorch, for neural networks in PyTorch. Neural networks are often described as "black box". The

D3D Devkit for 3D: Some utils for 3D object detection and tracking based on Numpy and Pytorch Please consider siting my work if you find this library

This is a highly practical and example-based guide on visually representing data in reports and dashboards.

ipyleaflet A Jupyter / Leaflet bridge enabling interactive maps in the Jupyter notebook. Usage Selecting a basemap for a leaflet map: Loading a geojso

geoplot: geospatial data visualization geoplot is a high-level Python geospatial plotting library. It's an extension to cartopy and matplotlib which m

felicette Satellite imagery for dummies. What can you do with this tool? TL;DR: Generate JPEG earth imagery from coordinates/location name with public

OSMnx OSMnx is a Python package that lets you download geospatial data from OpenStreetMap and model, project, visualize, and analyze real-world street

Automatic neural network visualizations generated in your browser!

Tool for visualizing attention in the Transformer model (BERT, GPT-2, Albert, XLNet, RoBERTa, CTRL, etc.)

Apache Superset is a Data Visualization and Data Exploration Platform

emb-ntua-workshop This workshop discusses introductory concepts of machine learning and data mining following a hands-on approach using popular tools

NetworkX is a Python package for the creation, manipulation, and study of the structure, dynamics, and functions of complex networks.

PyTorch Implementation of Generic Attention-model Explainability for Interpreting Bi-Modal and Encoder-Decoder Transformers 1 Using Colab Please notic

Geographic visualizations for HoloViews. Build Status Coverage Latest dev release Latest release Docs What is it? GeoViews is a Python library that ma

ipyleaflet A Jupyter / Leaflet bridge enabling interactive maps in the Jupyter notebook. Usage Selecting a basemap for a leaflet map: Loading a geojso

deck.gl | Website WebGL2-powered, highly performant large-scale data visualization deck.gl is designed to simplify high-performance, WebGL-based visua

Visual Automata Copyright 2021 Lewi Lie Uberg Released under the MIT license Visual Automata is a Python 3 library built as a wrapper for Caleb Evans'

Sequence -----------+-- 3D_structure -- 3D_module --+ +-- ? | |

git-cola: The highly caffeinated Git GUI git-cola is a powerful Git GUI with a slick and intuitive user interface. Copyright (C) 2007-2020, David Agu

yacv: Yet Another Compiler Visualizer yacv is a tool for visualizing various aspects of typical LL(1) and LR parsers. Check out demo on YouTube to see

MMdnn MMdnn is a comprehensive and cross-framework tool to convert, visualize and diagnose deep learning (DL) models. The "MM" stands for model manage

What is Vaex? Vaex is a high performance Python library for lazy Out-of-Core DataFrames (similar to Pandas), to visualize and explore big tabular data

Logging MXNet Data for Visualization in TensorBoard Overview MXBoard provides a set of APIs for logging MXNet data for visualization in TensorBoard. T

tensorboardX Write TensorBoard events with simple function call. The current release (v2.1) is tested on anaconda3, with PyTorch 1.5.1 / torchvision 0

Lucid Lucid is a collection of infrastructure and tools for research in neural network interpretability. We're not currently supporting tensorflow 2!

CapsNet-Visualization For more information on capsule networks check out my Medium articles here and here. Setup Use pip to install the required pytho

Welcome to Scikit-plot Single line functions for detailed visualizations The quickest and easiest way to go from analysis... ...to this. Scikit-plot i

Yellowbrick Visual analysis and diagnostic tools to facilitate machine learning model selection. What is Yellowbrick? Yellowbrick is a suite of visual

physt P(i/y)thon h(i/y)stograms. Inspired (and based on) numpy.histogram, but designed for humans(TM) on steroids(TM). The goal is to unify different

Chartify Chartify is a Python library that makes it easy for data scientists to create charts. Why use Chartify? Consistent input data format: Spend l

Hera Train/evaluate a Keras model, get metrics streamed to a dashboard in your browser. Setting up Step 1. Plant the spy Install the package pip

Orange Data Mining Orange is a data mining and visualization toolbox for novice and expert alike. To explore data with Orange, one requires no program

Mayavi: 3D visualization of scientific data in Python Mayavi docs: http://docs.enthought.com/mayavi/mayavi/ TVTK docs: http://docs.enthought.com/mayav

an interactive explorer for single-cell transcriptomics data cellxgene (pronounced "cell-by-gene") is an interactive data explorer for single-cell tra

The HyperNetX library provides classes and methods for the analysis and visualization of complex network data. HyperNetX uses data structures designed to represent set systems containing nested data and/or multi-way relationships. The library generalizes traditional graph metrics to hypergraphs.

Sockeye This package contains the Sockeye project, an open-source sequence-to-sequence framework for Neural Machine Translation based on Apache MXNet

Text preprocessing, representation and visualization from zero to hero. From zero to hero • Installation • Getting Started • Examples • API • FAQ • Co

Scattertext 0.1.0.0 A tool for finding distinguishing terms in corpora and displaying them in an interactive HTML scatter plot. Points corresponding t

ivis Implementation of the ivis algorithm as described in the paper Structure-preserving visualisation of high dimensional single-cell datasets. Ivis

PyWaffle PyWaffle is an open source, MIT-licensed Python package for plotting waffle charts. It provides a Figure constructor class Waffle, which coul

AutoViz Automatically Visualize any dataset, any size with a single line of code. AutoViz performs automatic visualization of any dataset with one lin

animatplot A python package for making interactive as well as animated plots with matplotlib. Requires Python = 3.5 Matplotlib = 2.2 (because slider

Lets-Plot Lets-Plot is an open-source plotting library for statistical data. It is implemented using the Kotlin programming language. The design of Le

In-depth EDA (target analysis, comparison, feature analysis, correlation) in two lines of code! Sweetviz is an open-source Python library that generat

JoyPy JoyPy is a one-function Python package based on matplotlib + pandas with a single purpose: drawing joyplots (a.k.a. ridgeline plots). The code f

openTSNE openTSNE is a modular Python implementation of t-Distributed Stochasitc Neighbor Embedding (t-SNE) [1], a popular dimensionality-reduction al

Introduction The facets project contains two visualizations for understanding and analyzing machine learning datasets: Facets Overview and Facets Dive

Chartify Chartify is a Python library that makes it easy for data scientists to create charts. Why use Chartify? Consistent input data format: Spend l

"To deal with hyper-planes in a 14 dimensional space, visualize a 3D space and say 'fourteen' very loudly. Everyone does it." - Geoff Hinton Overview

PyVista Deployment Build Status Metrics Citation License Community 3D plotting and mesh analysis through a streamlined interface for the Visualization

Perspective is an interactive visualization component for large, real-time datasets. Originally developed for J.P. Morgan's trading business, Perspect

missingno Messy datasets? Missing values? missingno provides a small toolset of flexible and easy-to-use missing data visualizations and utilities tha

VisPy: interactive scientific visualization in Python Main website: http://vispy.org VisPy is a high-performance interactive 2D/3D data visualization

PyQtGraph A pure-Python graphics library for PyQt5/PyQt6/PySide2/PySide6 Copyright 2020 Luke Campagnola, University of North Carolina at Chapel Hill h

UMAP Uniform Manifold Approximation and Projection (UMAP) is a dimension reduction technique that can be used for visualisation similarly to t-SNE, bu

Altair http://altair-viz.github.io Altair is a declarative statistical visualization library for Python. With Altair, you can spend more time understa

Bokeh is an interactive visualization library for modern web browsers. It provides elegant, concise construction of versatile graphics, and affords hi

Dash Dash is the most downloaded, trusted Python framework for building ML & data science web apps. Built on top of Plotly.js, React and Flask, Dash t

seaborn: statistical data visualization Seaborn is a Python visualization library based on matplotlib. It provides a high-level interface for drawing

plotly.py Latest Release User forum PyPI Downloads License Data Science Workspaces Our recommended IDE for Plotly’s Python graphing library is Dash En

Sockeye This package contains the Sockeye project, an open-source sequence-to-sequence framework for Neural Machine Translation based on Apache MXNet

Text preprocessing, representation and visualization from zero to hero. From zero to hero • Installation • Getting Started • Examples • API • FAQ • Co

Scattertext 0.1.0.0 A tool for finding distinguishing terms in corpora and displaying them in an interactive HTML scatter plot. Points corresponding t

ivis Implementation of the ivis algorithm as described in the paper Structure-preserving visualisation of high dimensional single-cell datasets. Ivis

PyWaffle PyWaffle is an open source, MIT-licensed Python package for plotting waffle charts. It provides a Figure constructor class Waffle, which coul

AutoViz Automatically Visualize any dataset, any size with a single line of code. AutoViz performs automatic visualization of any dataset with one lin

animatplot A python package for making interactive as well as animated plots with matplotlib. Requires Python = 3.5 Matplotlib = 2.2 (because slider

Lets-Plot Lets-Plot is an open-source plotting library for statistical data. It is implemented using the Kotlin programming language. The design of Le

In-depth EDA (target analysis, comparison, feature analysis, correlation) in two lines of code! Sweetviz is an open-source Python library that generat

JoyPy JoyPy is a one-function Python package based on matplotlib + pandas with a single purpose: drawing joyplots (a.k.a. ridgeline plots). The code f

openTSNE openTSNE is a modular Python implementation of t-Distributed Stochasitc Neighbor Embedding (t-SNE) [1], a popular dimensionality-reduction al

Introduction The facets project contains two visualizations for understanding and analyzing machine learning datasets: Facets Overview and Facets Dive

Chartify Chartify is a Python library that makes it easy for data scientists to create charts. Why use Chartify? Consistent input data format: Spend l

"To deal with hyper-planes in a 14 dimensional space, visualize a 3D space and say 'fourteen' very loudly. Everyone does it." - Geoff Hinton Overview

PyVista Deployment Build Status Metrics Citation License Community 3D plotting and mesh analysis through a streamlined interface for the Visualization

Perspective is an interactive visualization component for large, real-time datasets. Originally developed for J.P. Morgan's trading business, Perspect

missingno Messy datasets? Missing values? missingno provides a small toolset of flexible and easy-to-use missing data visualizations and utilities tha

VisPy: interactive scientific visualization in Python Main website: http://vispy.org VisPy is a high-performance interactive 2D/3D data visualization

PyQtGraph A pure-Python graphics library for PyQt5/PyQt6/PySide2/PySide6 Copyright 2020 Luke Campagnola, University of North Carolina at Chapel Hill h

UMAP Uniform Manifold Approximation and Projection (UMAP) is a dimension reduction technique that can be used for visualisation similarly to t-SNE, bu

Altair http://altair-viz.github.io Altair is a declarative statistical visualization library for Python. With Altair, you can spend more time understa

Bokeh is an interactive visualization library for modern web browsers. It provides elegant, concise construction of versatile graphics, and affords hi

Dash Dash is the most downloaded, trusted Python framework for building ML & data science web apps. Built on top of Plotly.js, React and Flask, Dash t

seaborn: statistical data visualization Seaborn is a Python visualization library based on matplotlib. It provides a high-level interface for drawing

plotly.py Latest Release User forum PyPI Downloads License Data Science Workspaces Our recommended IDE for Plotly’s Python graphing library is Dash En

vprof vprof is a Python package providing rich and interactive visualizations for various Python program characteristics such as running time and memo

Pattern Pattern is a web mining module for Python. It has tools for: Data Mining: web services (Google, Twitter, Wikipedia), web crawler, HTML DOM par

Best-of Machine Learning with Python 🏆 A ranked list of awesome machine learning Python libraries. Updated weekly. This curated list contains 840 awe

httpstat httpstat visualizes curl(1) statistics in a way of beauty and clarity. It is a single file 🌟 Python script that has no dependency 👏 and is

PyG2Plot 🎨 Python3 binding for @AntV/G2Plot which an interactive and responsive charting library. Based on the grammar of graphics, you can easily ma

sorting_algo_visualizer Python script to generate a visualization of various sorting algorithms, image or video.

VisualizingTwitchCommunities This project maps communities of streamers on Twitch.tv based on shared viewership. The data is collected from the Twitch

VizGradCAM VizGradCam is the fastest way to visualize GradCAM in Keras models. GradCAM helps with providing visual explainability of trained models an

Welcome to TensorWatch TensorWatch is a debugging and visualization tool designed for data science, deep learning and reinforcement learning from Micr

Dash Dash is the most downloaded, trusted Python framework for building ML & data science web apps. Built on top of Plotly.js, React and Flask, Dash t

Installation | Documentation | Gitter Chat | Google Group Bowtie Introduction Bowtie is a library for writing dashboards in Python. No need to know we

Welcome to Scikit-plot Single line functions for detailed visualizations The quickest and easiest way to go from analysis... ...to this. Scikit-plot i

Superset A modern, enterprise-ready business intelligence web application. Why Superset? | Supported Databases | Installation and Configuration | Rele

pastalog Simple, realtime visualization server for training neural networks. Use with Lasagne, Keras, Tensorflow, Torch, Theano, and basically everyth

PyQtGraph A pure-Python graphics library for PyQt5/PyQt6/PySide2/PySide6 Copyright 2020 Luke Campagnola, University of North Carolina at Chapel Hill h